It could also be caused from a yeast infection, have you had any discharges? A yeast infection can get irritated by having sex and have a burning/itching feeling. It could be an allergic reaction from the latex, have you ever had any problems before with the condoms? Did you guys use a different type of condom than you normally would?
This may be caused by Gonorrhea.
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The burning and itching do like an allergic reaction... or, could it possibly be friction causing the burning sensation?... if your bf is on the big side, or if you're kinda small and tight down there, it can cause an irritation that feels like a burn. By the way, do you use a lubricant with the condoms? Maybe, that will help minimize the discomfort.