I recently finished the series and had to look all over the place for solutions to bugged and time-wasting achievements. I thought it might be useful to collect these findings in a single post, in case at some point in the future someone comes across the same issues.

Deponia

Master of Switches
1. Save your game in the puzzle room.
2. Do the puzzle correctly the first time around. The achievement doesn't unlock although it should.
3. Save your game when you arrive at the new location.
4. Reload your previous same game.
5. Do the puzzle incorrectly. This enables the skip mini-puzzle button in the top right.
6. Skip the puzzle. The achievement unlocks.

Droggeljug
Not bugged as far as I know, just an incredibly obnoxious waste of time. Unfortunately, reloading a previous normal save and completing the game again doesn't work. Fortunately, you can use this save file from Torpornought (source: this guide on Steam).

Deponia 2: Chaos on Deponia

Cheater and Pin-up Goal
Mazixes figured these out.
You may want to first try the method described below and see if simply using a save from version 3.2.4.3324 from the Daedalic support site is enough. I'd already unlocked the achievements via tedious and time-consuming downgrading and I didn't get a chance to test. If attempting this, get savegame01 for Cheater and then repeatedly reload it and collect the puzzle piece until you have 12. For Pin-Up Goal, savegame15 should be the last one that lets you backtrack to get the 8 puzzle pieces in the area before moving on to get the next 4. YouTube video with all the locations.

Deponia 3: Goodbye Deponia

Ornithorhynchologist
Thanks to Excifer for helping me figure out this one.
1. Find your saves folder. In Windows, open File Explorer and enter the following into the address bar: %LocalAppData%\Daedalic Entertainment\Deponia 3\Savegames
2. Move everything there elsewhere for safekeeping.
3. Download savegame08 (Laundry Minigame) from version 3.2.4.3324 from the Daedalic support site into your saves folder.
4. Load the save and collect the 15 eggs. If you haven't memorized their location by now, see A guide to Ornithorhynchologist achievement.

Deponia 4: Deponia Doomsday

1001 Jackalopes
Not bugged, just one of the worst achivements I've ever seen. If you don't want to waste your time but you also don't want to miss out on 100% completion, see the AutoHotkey script by LvlLord.

I totally agree that 1001 Jackalopes is one of the worst achievements I ever seen (I'm quite sure it was deliberately made only to piss off achievement hunters) but what amazes me even more is that people actually waste time for doing that. Even with this script it means leaving it for ~2 hours and for what? There is no satisfaction, nothing other than couple meaningless pixels on profile. Guy who wrote the script at least did something creative and it was probably useful exercise for him. Now this is some achievement.

For Cheater and Pin-up there is no need to downgrade anything or download saves and both are easily doable in like 20 minutes:

1. I recommend leaving both for the very end after you complete the game.
2. Which means not collecting any puzzle pieces before.
3. Make save right before giving Goal invitation.
4. When you're ready load that save and collect all pieces in one sitting for Pin-up Goal.
5. Start new game and speedrun to the first piece location, save, take puzzle, load, take, load and repeat until Cheater pops out.
5a. Alternatively removing or renaming profile.dat from savegames location should reset puzzle progress so starting new game wouldn't be necessary (not tested).

I assure you, I wasted an inordinate amount of time starting from scratch with a completely empty Savegames folder and anything else you can think of. Cheater and Pin-up Goal are definitely bugged and cannot be unlocked normally, as confirmed by others in the thread linked above. Downgrading then upgrading the game worked for me and others, but using the latest version to start with a save from 3.2.4.3324 might also work.

Step 5a may not work. I deleted the whole Deponia 2 folder in %localappdata%, booted up the game to create a new fresh folder, copied over one save game from my back up Deponia 2 folder where I did not find any puzzle pieces, proceeded to find all 12 puzzle pieces in one sitting without saving or reloading, the achievement did not pop (right away, after I quit to main menu to verify the puzzle is complete, or after I quit and restarted the game.)

1001 Jackalopes... Eugh, probably the most tedious game experience I've ever had, considering everything back to Vic20. Some general advice follows:

1. The cartridges appear in your inventory in order they were ejected (last ejected should be right-most).
2. The game can randomly swap cart order & contents upon ejection from the Jackalope Generator, causing much confusion, to avoid this eject the cart you don't need then leave the Jackalope Generator, the cart with the mix you want will be auto-ejected & should be right-most in your inventory.
3. I was able to skip all reaction dialogue without ill consequence, & the cart ejected from the cart compartment can be selected from your inventory & clicked onto the Jackalope Generator to auto-combine walking & insertion into slot A.

Some help for 'Nix users follows:

1. It is possible to track your progress by using commands (see code 2 below) piped through common programs (cat, grep, sed, sort, strings) to compare values in your savefile to a list of all combinations required (see code 1 below).
2. If you have a SSH client on another device (eg: phone) then you can track your progress from outside the game by using a shared session in screen by first creating a named session in your terminal emulator on your game computer, eg: screen -L -S WolpAch, then SSH to your game computer from the other device & enter screen -x WolpAch.
3. The digits in the combinations refer to each genetic source: 1=reptile, 2=clown, 3=sable.
4. The position of the digit in the combinations represents the body component: (B)uild, [E]xtremity, [M]ood, [H]air, [C]olour.
5. The order of the body component buttons on the Jackalope Generator is: [E]xtremity, [M]ood, [H]air, (B)uild, [C]olour.

Code 1 (create the reference file):

cat << EOF > DepTarget
11112,11113,11121,11122,11123,11131,11132,11133,11211,11212,11213,11221,11222,11223,11231,11232,11233,11311,11 312,11313,11321,11322,11323,11331,11332,11333,12111,12112,12113,12121,12122,12123,12131,12132,12133,12211,1221 2,12213,12221,12222,12223,12231,12232,12233,12311,12312,12313,12321,12322,12323,12331,12332,12333,13111,13112, 13113,13121,13122,13123,13131,13132,13133,13211,13212,13213,13221,13222,13223,13231,13232,13233,13311,13312,13 313,13321,13322,13323,13331,13332,13333,21111,21112,21113,21121,21122,21123,21131,21132,21133,21211,21212,2121 3,21221,21222,21223,21231,21232,21233,21311,21312,21313,21321,21322,21323,21331,21332,21333,22111,22112,22113, 22121,22122,22123,22131,22132,22133,22211,22212,22213,22221,22222,22223,22231,22232,22233,22311,22312,22313,22 321,22322,22323,22331,22332,22333,23111,23112,23113,23121,23122,23123,23131,23132,23133,23211,23212,23213,2322 1,23222,23223,23231,23232,23233,23311,23312,23313,23321,23322,23323,23331,23332,23333,31111,31112,31113,31121, 31122,31123,31131,31132,31133,31211,31212,31213,31221,31222,31223,31231,31232,31233,31311,31312,31313,31321,31 322,31323,31331,31332,31333,32111,32112,32113,32121,32122,32123,32131,32132,32133,32211,32212,32213,32221,3222 2,32223,32231,32232,32233,32311,32312,32313,32321,32322,32323,32331,32332,32333,33111,33112,33113,33121,33122, 33123,33131,33132,33133,33211,33212,33213,33221,33222,33223,33231,33232,33233,33311,33312,33313,33321,33322,33 323,33331,33332,33333
EOF

Code 2 (compare savefile to reference, change path & filename to match yours, BACKUP YOUR SAVEFILE!):

grep -xvFf <( strings .local/share/Daedalic\ Entertainment\ GmbH/Deponia\ 4/Savegames/savegame00.dat | grep -Po '[1-3]{5}' ) <( cat DepTarget | sed 's/,/\n/g' ) | sort -n | sed -z 's/\n/,/g; s/,$/\n/'

Extra:

You can pipe code 2 output to a grep pattern search if hunting for specific combinations to max the efficiency, eg:

grep -xvFf <( strings .local/share/Daedalic\ Entertainment\ GmbH/Deponia\ 4/Savegames/savegame00.dat | grep -Po '[1-3]{5}' ) <( cat DepTarget | sed 's/,/\n/g' ) | sort -n | sed -z 's/\n/,/g; s/,$/\n/' | grep -Po '11[23]{3}'

You can loop the string of commands with a duration in seconds so it auto refreshes if you prefer, eg:

while true; do grep -xvFf <( strings .local/share/Daedalic\ Entertainment\ GmbH/Deponia\ 4/Savegames/savegame00.dat | grep -Po '[1-3]{5}' ) <( cat DepTarget | sed 's/,/\n/g' ) | sort -n | sed -z 's/\n/,/g; s/,$/\n/'; sleep 5s; clear; done

You can combine the above, run one version in a tab as a master list & a looped pattern search version in a named screen session in another tab while watching changes from your phone, or you can say "TO HELL WITH THIS ACHIEVEMENT!" & go do something funner.

I had way more fun in BASH with the commands than I did completing this odious achievement. Choose life.

Extra Extra:

If you must have this achievement but can't do this process to yourself (can't blame you) you could try replacing all hex values in your savefile from & including 4000_WolpAchievState... right up to but not including 4000_CurrentWolpStaturValue, then save changes, load the savefile, create gene sequence 32123 & jam it in the cloning machine (this data from savefile produced by Deponia 4 1.2.0267, no guarantee it will work):

34 30 30 30 5F 57 6F 6C 70 41 63 68 69 65 76 53 74 61 74 65 00 DC 0B 00 00 07 00 00 00 FF FF FF FF FF FF FF FF AC 05 00 00 31 31 33 33 33 2C 33 32 32 31 32 2C 32 33 31 32 31 2C 31 32 31 31 31 2C 32 31 32 32 32 2C 31 32 32 31 31 2C 32 31 31 32 32 2C 31 32 32 32 31 2C 32 31 31 31 32 2C 31 31 31 31 32 2C 32 32 32 32 31 2C 31 32 31 31 32 2C 32 31 32 32 31 2C 31 31 32 31 32 2C 32 32 31 32 31 2C 31 31 31 31 31 2C 33 33 33 33 33 2C 31 32 32 32 32 2C 32 31 31 31 31 2C 31 31 31 32 31 2C 32 32 32 31 32 2C 31 32 31 32 32 2C 32 31 32 31 31 2C 31 33 31 31 31 2C 33 31 33 33 33 2C 31 31 33 31 31 2C 33 33 31 33 33 2C 31 31 31 33 31 2C 33 33 33 31 33 2C 31 33 33 31 33 2C 33 31 31 33 31 2C 31 33 33 33 33 2C 33 31 31 31 31 2C 31 31 31 31 33 2C 33 33 33 33 31 2C 31 32 31 32 31 2C 32 31 32 31 32 2C 31 31 31 32 32 2C 32 32 32 31 31 2C 31 32 32 31 32 2C 32 32 31 32 32 2C 31 31 32 31 31 2C 31 31 32 32 32 2C 32 32 31 31 31 2C 31 31 32 32 31 2C 32 32 31 31 32 2C 32 31 31 32 31 2C 32 33 32 32 32 2C 33 32 33 33 33 2C 32 32 33 32 32 2C 33 33 32 33 33 2C 32 32 32 33 32 2C 33 33 33 32 33 2C 32 33 33 33 33 2C 33 32 32 32 32 2C 32 32 32 32 33 2C 33 33 33 33 32 2C 32 33 33 33 32 2C 33 32 32 32 33 2C 32 33 33 32 32 2C 33 32 32 33 33 2C 32 33 32 32 33 2C 33 32 33 33 32 2C 32 33 33 32 33 2C 33 32 32 33 32 2C 32 32 33 33 32 2C 33 33 32 32 33 2C 32 33 32 33 33 2C 33 32 33 32 32 2C 32 32 32 33 33 2C 33 33 33 32 32 2C 32 32 33 33 33 2C 33 33 32 32 32 2C 31 33 33 33 32 2C 33 31 31 31 33 2C 31 33 33 31 32 2C 33 31 31 33 33 2C 33 33 31 31 32 2C 31 31 33 31 33 2C 33 33 31 33 32 2C 31 31 33 31 32 2C 31 31 31 33 32 2C 31 31 31 33 33 2C 33 33 33 31 32 2C 31 31 33 33 32 2C 33 33 31 31 33 2C 31 33 31 31 32 2C 31 33 31 31 33 2C 33 31 33 33 32 2C 31 33 31 33 32 2C 33 31 33 31 33 2C 31 33 31 33 33 2C 33 31 33 31 32 2C 33 31 31 31 32 2C 33 31 31 33 32 2C 32 33 31 31 31 2C 32 33 33 31 31 2C 32 33 33 33 31 2C 32 33 33 31 33 2C 32 33 31 31 33 2C 32 33 31 33 33 2C 32 33 31 33 31 2C 32 31 31 31 33 2C 32 31 31 33 31 2C 32 31 31 33 33 2C 32 31 33 31 31 2C 32 31 33 31 33 2C 32 31 33 33 31 2C 32 31 33 33 33 2C 31 31 31 32 33 2C 31 31 32 31 33 2C 31 31 32 32 33 2C 31 32 31 31 33 2C 31 32 31 32 33 2C 31 32 32 31 33 2C 31 32 32 32 33 2C 32 31 31 32 33 2C 32 31 32 31 33 2C 32 31 32 32 33 2C 32 32 31 31 33 2C 32 32 31 32 33 2C 32 32 32 31 33 2C 32 32 32 33 31 2C 32 32 33 32 31 2C 32 32 33 33 31 2C 32 33 32 32 31 2C 32 33 32 33 31 2C 32 33 33 32 31 2C 33 32 33 33 31 2C 33 33 32 32 31 2C 33 33 32 33 31 2C 33 33 33 32 31 2C 33 32 32 32 31 2C 33 32 32 33 31 2C 33 32 33 32 31 2C 31 31 33 33 31 2C 31 33 33 31 31 2C 31 33 33 33 31 2C 31 33 31 33 31 2C 33 31 33 31 31 2C 33 31 33 33 31 2C 33 33 31 31 31 2C 33 33 31 33 31 2C 33 33 33 31 31 2C 32 32 33 32 33 2C 33 33 32 33 32 2C 32 33 32 33 32 2C 33 32 33 32 33 2C 32 32 33 31 32 2C 32 32 33 31 33 2C 32 33 32 31 32 2C 32 33 33 31 32 2C 32 32 32 32 32 2C 33 32 33 31 33 2C 33 32 33 31 32 2C 33 33 32 31 32 2C 33 33 32 31 33 2C 33 32 32 31 33 2C 32 33 32 31 33 2C 31 31 32 33 31 2C 33 33 32 31 31 2C 31 31 32 33 33 2C 31 33 32 31 31 2C 31 33 32 31 33 2C 31 33 32 33 31 2C 31 33 32 33 33 2C 33 31 32 31 31 2C 33 31 32 33 31 2C 33 31 32 33 33 2C 33 31 32 31 33 2C 31 32 31 33 31 2C 31 32 31 33 33 2C 31 32 33 31 31 2C 31 32 33 31 33 2C 31 32 33 33 31 2C 31 32 33 33 33 2C 33 32 31 31 31 2C 33 32 31 31 33 2C 33 32 31 33 31 2C 33 32 31 33 33 2C 33 32 33 31 31 2C 33 31 31 32 31 2C 33 31 31 32 32 2C 33 31 32 31 32 2C 33 31 32 32 31 2C 33 31 32 32 32 2C 33 32 31 31 32 2C 33 32 31 32 31 2C 33 32 31 32 32 2C 33 32 32 31 31 2C 31 32 32 33 32 2C 31 32 32 33 33 2C 31 32 33 32 32 2C 31 32 33 32 33 2C 31 32 33 33 32 2C 31 33 32 32 32 2C 31 33 32 32 33 2C 31 33 32 33 32 2C 31 33 33 32 32 2C 31 33 33 32 33 2C 31 31 32 33 32 2C 31 31 33 32 31 2C 31 31 33 32 32 2C 31 31 33 32 33 2C 33 33 31 32 31 2C 33 33 31 32 32 2C 33 33 31 32 33 2C 32 31 31 33 32 2C 32 31 32 33 31 2C 32 31 32 33 33 2C 32 31 32 33 32 2C 32 31 33 31 32 2C 32 31 33 32 32 2C 32 31 33 32 33 2C 32 31 33 33 32 2C 32 33 31 31 32 2C 32 33 31 32 32 2C 32 33 31 32 33 2C 32 33 31 33 32 2C 32 33 32 31 31 2C 31 32 31 33 32 2C 31 32 32 33 31 2C 31 32 33 31 32 2C 31 32 33 32 31 2C 31 33 31 32 31 2C 31 33 31 32 32 2C 31 33 31 32 33 2C 31 33 33 32 31 2C 31 33 32 32 31 2C 31 33 32 31 32 2C 32 32 31 33 31 2C 32 32 31 33 32 2C 32 32 31 33 33 2C 32 32 33 31 31 2C 33 31 31 32 33 2C 33 31 32 32 33 2C 33 31 32 33 32 2C 33 31 33 32 31 2C 33 31 33 32 32 2C 33 31 33 32 33 2C 32 31 33 32 31 2C 33 32 31 33 32 00 00 00 80 BF 1C 00 00 00