re engage convertible top

We accidentally disengaged the convertible top mechanism. To re-engage it, we read through the postings here that tell you to yank the two drive mechanisms back into their motors, which we did. Now, both the tonneau cover and the ragtop itself do activate, but they seem out of sync -- the tonneau cover doesn't quite open all the way, so the top gets stuck on it; then, when we get the cover open and the ragtop latches (either up or down), the windows don't automatically come up, and the cycle doesn't get fully completed.

Any suggestions?

it pritty hard to accidentally disengage the top in what position
was it when you disengaged it?