General notes on bart treatment:
Rifampin or rifabutin plus azithromycin or clarithromycin is often the first protocol tried for bart. High rate of failure due to increasing resistance of bartonella to these antibiotics.
Next up is tetracyclines (doxy, mino) and anti-folates (bactrim, dapsone, malarone)
Methylene blue is popular, but so far very limited data on how well it works in vivo. Known to work in vitro.
Metronidazole or tinidazole can be effective, but many patients can not tolerate the side effects.
Floroquinolones (eg cipro) can be effective, but also have risk of serious side effects.
Failing all of that, there are some fairly experimental things that a few people have tried, including kaletra (lopinavir/ritonavir), depakote (valproate), disulfiram. Risk of bartonella 'flare' with these.