I noticed that if I go to the guide and select a non-OTA program, the program will play but when the 'commercial break' message appears, if I wait a few minutes, actual commercials will start playing. if I wait for the commercials to end, you go back to the program. If you do this, the program ends 10-15 minutes later than it was scheduled to end. BUT, if after the 'commercial break' message appears, and after a few minutes, an actual commercials will start. If I back out of the program so you go back to the guide, than select the program again, the program will resume, by-passing the commercial.
I tried this on programs from Fox News and HGTV.
When you select a program from the guide to watch, doesn't Channels start recording the program in the background? If this is the case, it explains the extra commercials in the recordings. Sounds like TVE isn't embedding the 'actual commercials in programing correctly.