The channels and subchannels that the OTA module finds appear in the guide just as the satellite-delivered locals do, right beside them. Their logos are in yellow, but that's the only difference. It does take a day for the information to populate, so for the first 24 hours there's no data. If you're familiar with the DirecTV guide, it looks very similar. But unlike DirecTV, you get a real scan, not just the sub-channels that the provider allows you to have.
As to the rest, I'm really a noob at Dish, having last fooled with it back in 1999, and having been with DirecTV ever since. But I'll try to contribute what I can. When I push the red button to record a show currently in progress, a little box pops up saying I'm about to record, and do I want to record just this episode or the entire series.
Having little interest in prime time network programming, I've turned PTA off, so I can't help much there.
I mainly went to Dish for the international English news channels, such as France 24, Euronews, and others.