I must say I'm confused as to how you posted a new thread under the Guest account, but I'm so sorry your Proto man disappeared! If you could let me know the name of your actual save file, I could easily look it up give your robot back to you (or at least allow you unlock him again). I'm terribly sorry for the inconvenience, and hopefully we can get this sorted out! :(
Thank you. I fixed this post so it's attached to the right account, but unfortunately I have no idea what happened to your Proto Man. :S I downloaded a copy of your file and played with it locally, and the transfer process seems to be working fine so I don't know what could have went wrong for you. Given that you posted as a guest (which would only happen in some weird session timeout scenario where you were logged out and didn't know it) I imagine that had something to do with your robot glitch too. I'm so sorry this happened! >_<
I've gone into your game file and re-unlocked Proto Man for you and put him at level 99 with 999 experience as apologies - I imagine you had him at a pretty high power anyway so hopefully this helps your get back on track a bit... I really don't know what else to say other than sorry and I will look over the code and try to make sure this doesn't happen to anyone else in the future. Thank you for reporting the bug to me.
No problem. I realized that the unlock I did has some bugs so I redid it and retested to make sure Proto Man showed up in the leaderboards again and could still fight in battle. Everything seems to be fine again so hopefully you wont have any further issues. Sorry again!