cat with stomatits/possible bartonella

Hello - I am new to this group and would like to post a case. I hope
I'm doing this right.

I have a cat approx. 5 years old, neutered male, adopted from a local
shelter about 3 months ago. He has fairly severe gum inflammation with
ulcerative patches on each side of this throat in the tonsil area. His teeth were cleaned and one
bad tooth extracted in August/06. The vet gave me very little information at the time and I have done a lot of research on my own over the last few weeks as this condition was entirely new to me. After the cleaning the gums improved briefly (but he was on antibiotics for 7 days
post surgery). Currently his mouth has worsened again and he often is unable to eat. He will bend his neck down while chewing. When he swallows he often runs and hides and then refuses to return to his dish.
His mouth smells quite foul and their is some drool, but not excessive.
The gum inflammation is primarily at the back of the mouth. It is quite
red but not really dark. Pain may be worse on the right than left, but I'm not positive. He seems to be more uncomfortable in the evenings/night, and spends a lot of time sleeping. He appears to seek warmth. He does not seek high places and prefers to sleep on a chair/sofa, or in his box. He is quite anxious and easily frightened by loud noises, particularly rain/thunder storms. He is also chronically constipated and I am forced to give him enemas every 3-4 days because he does not defecate on his own. This is a relatively new symptom over the past 2 weeks. He is very sweet and affectionate towards humans but extremely ggressive towards my other cat, and they are currently completely separated (this is probably
a separate issue but at some point I'm hoping to deal with this homeopathically, also). In my research I have found that this condition is often caused by Bartonella, a bacteria carried by fleas. This cat had one of the worst flea infestations I've ever seen when I got him, so
I think this is a strong possibilty. There is also a connection with Calici Virus in many of these cats. He is missing several teeth and I'm
assuming his early nutrition was horrible. He had several vaccines last spring, including rabies (before I got him), while under anaesthesia for neutering. He is on a raw food diet (ground whole prey) as well as a variety of supplements, including coQ10, lactoferrin and colloidal
silver.

Homeopathic remedies I have tried: 1) Arsenicum 30c, 2x/3 days 2)Merc Sol 30c 2x/day for 7 days - possible slight improvement but not sure
2)Merc Cor 200 single dose (just yesterday) seems to have increased urge to swallow (and possibly pain, I think), no improvement in mouth odor.

Remedies I'm considering: Nit Ac, lachesis

I read an old post on this site for a very similar case, which, for which someone
recommended anthracinum 200c for the Bartonella. There was no follow-up so I'm not sure what the outcome was. Any input on this?

I'm also thinking of making an auto-nosode from his saliva. I've never tried anything like this before and I realize it's not classical homeopathy but possibly it's worth a try.

Thank you so much for any help you might be able to offer! Evelyn