1. Whether you're using the battery or AC adapter should not make a difference. I'd suggest getting a replacement AC adapter though, 'cause recording uses a lot more power than playback, and your battery might run out of juice in the middle of one of your recordings.
2. As far as your recordings turning up as one long track... You must be recording in analog. A digital recording will put the track marks in automatically, but analog won't. (Think of it as a tape recorder. Recording in analog just records the sound.)
To put the track marks in, you'll have to either go back and edit the disk, adding the tracks marks (find the spot and use the DIVIDE function to make a new track). Or next time you record, turn on the auto-trackmark function. It may not put in all the track marks -- it looks for a two-second gap and puts a track mark there -- but it should put in the majority of track marks correctly.
I'd recommend getting a CD player with optical digital out and use the TOSLINK cable that came with your R91 to record digitally. Hassle free and best audio quality!