A shallow pan should not make the plant taller. When you have good light seedlings do not get too tall. Any chance you still have them on the heat mat? If yes, remove them as that encourages them to grow tall. If you are still using a humidity dome remove that also.

You should be able to plant them deeper if the stems have not been damaged from falling over. Yes, Gently adding more soil would be another alternative.

I have transplanted my seedlings with their first true leaves very small and they did quite well.. If your seedlings are quite tall and fragile I am afraid they may not do well.

Good luck

J

Thanks for all that good info!