Also there is no cap on intake under burn pot
With no fresh air kit, there should be. It's factory installed.
PM Owen on this site (he posted as well earlier) he works at USSC. He's in Customer service I think...lol, he'll get you one. Actually, it is on the USSC site under 6039-41 pellet/multifuel stoves. Seen it there before.
If you have a 4 button board (which I presume you do), I'd do a system reset first off (by pressing and holding the 'Aux up and down buttons together for 5 seconds, with the board hot and the unit plugged in of course.. That will return the board to the factory parameters (if it's not there for some reason). Then set the Heat Range at 5, room fan on 9, draft fan on 'Auto' and 'Aux' which is the agitator on 1, if you are running pellets only. In fact, leave the AUX on '1' no matter what the other settings are, if running pellets. 1 produces less agitator revolutions which produces less ash movement. The agitator is really designed for corn burning in a non-clinker pot.
If you don't have a 4 button board, order one up, it's a good investment and it's widely adjustable parameter wise.
Been running your stove for over 10 years, no issue btw.
I imagine with your cleanout inside, behind the stove, deep cleanings (which should be done at least monthly) are on the infrequent side, if at all. You really need to suck the heck out of the venting and get the fly ash out, it will probably run a whole lot better.
When you clean the inside of the stove, it's real important to pull both angled metal doors, left and tight of the burn pot pedestal and get in there with a bottle brush and get the ash from behind the wall.
I've never replaced the glass wool gasket on the CA fan housing. First time I opened mine up (for spring cleaning), I tossed the gasket and switched to red rtv for a seal. That was about 9 removals ago.
I still don't like that pipe so close to the sheetrock. It's against my judgement for a safe install and it really limits your access to the backside of the stove. Mine is a good 2 feet farther out than yours is.
If it had been me and my stove, I'd have taken my SDS hammerdrill and bored right through the existing chimmney and ran the vent all the way through with a termination hood on the end. Would have been a ton cheaper and easier to service.