You can solve this with DosBox:
http://www.dosbox.com/wiki/Mapper What I did:
1. Start "C:\Program Files (x86)\GOG.com\Superfrog\DOSBOX\DOSBox.exe"
2. Press CTRL+F1
3. Move the mouse cursor to over to ALT and click it, then click ADD and move the joystick UP.
4. Move the mouse cursor over to CTRL and click it, then click ADD and press the fire button on the joystic.
5. Move the mouse cursor to the keyboards left arrow, then click ADD and move your joystick to the left.
6. Move the mouse cursor to he keyboards down arrow, then click ADD and move your joystick downwards.
7. Move the mouse cursor to the keyboards right arrow, then click ADD and move your joystick to the right.
8. Move the mouse cursor to the SAVE button and click it.
Now you have created a mapping file, its time to deploy it to Superfrog.
1. Stat CMD (click start and type cmd, or Start -> Run and type "CMD" then press enter)
2. In the cmd window (the black textbox window) type:
copy c:\Users\%username%\AppData\Local\DOSBox\mapper-0.74.map "C:\Program Files (x86)\GOG.com\Superfrog\mapper.txt"
Now you should be able to start Superfrog and use your joystick or gamepad to play the game.