My understanding was that save games should be backwards compatible from latest 0.C experimental all the way back to 0.B, can anyone confirm this?
The latest Android build (0.4) no longer stores the keyboard shortcuts in the .sav json file. Instead it creates a separate .shortcuts file alongside the .sav file. This means the Android save games should be 100% interchangeable with the desktop version, so you could set up two-way Dropbox/Google Drive syncing for example and switch between your phone and PC. The .shortcuts file will just be ignored on the desktop build in this case.
So back to your original issue, what actually happens when you try and copy a save game from desktop over to the Android build? Does it crash? Or load in a broken state?