You don't need any more HIV tests. Your HIV ELISA and WB tests at 12 and 13 weeks are conclusively negative for both HIV-1 and HIV-2. There is no need to continue testing for HIV.
The anti-virals you were taking for HSV would not affect your HIV tests. If you want more information about herpes, you can visit that forum: https://www.medhelp.org/forums/Herpes/show/195
I don't know why your doctor suggested that you keep testing, but his recommendation is out of line with the medical consensus of other HIV experts.