Rhonda:
If you look at the Vendors in question, the payments must also be missing. Correct? I don't see a way that the cheques could be there but the invoices on which they are based are not there. Depending on how you restored the files, it's likely that the payments are missing from the GL too.
If that's correct, re-process the cheques and print them to blank paper. If my assumptions are not correct, let us know.