let's keep this all in your original post instead of having multiple posts - thanks!
Hi, i found the below from a discussion a while back and maybe can shed some light on your question. I believe the replier had the same problems.
LuvMedicine
Nov 26, 2009
To: shaken71
Yes, new research confirmed that bacterial vaginosis can give false positives for low-risk women who are tested for gonorrhea and chlamydia by NAAT (the urine test). It is recommended that those who are given the diagnosis of bacterial vaginosis and are then told they also have Chlamydia and Gonorrhea when they are low-risk (ie. have (-) partner and are in a monogamous relationship) should request a culture test. The tx for BV is metronidazole, an antibiotic that DOES NOT kill gc/chlamydia. If the culture is negative it's because you never had it, not bc the medication erradicated it. I know because it happened to me. Supposedly, false positives are rare so you may want to request the culture and empirical treatment.