First of all, what are you trying to do? Why did you put two mics up?
Plan this all out before you start. I'll give you an example of my own thinking:
This weekend I was recording a two-guitar band doing a 90's style arena rock song. I wanted slightly "unfocused" guitars like you would hear bouncing around a giant arena. I would do this with bleed. A lot of bleed. So I put the two guitar amps in the same room and had them play together. Each amp was close mic'd, and then there was a stereo pair of mics out in the middle of the room. I carefully placed and balanced the two amps so they would appear left/right in the stereo mics. In that case, the close mics were hard right/left and the stereo pair was hard right/left.
We did another song later in the day where a keyboard was supposed to sprawl all over the mix and hog up all the room. In that case, we only recorded one guitar using only one mic up as close as possible to eliminate any room sound. A second condenser mic didn't make any sense in that case.
A few weeks ago I did a trio (bass, guitar, drums). They had a very open organic sound and there was plenty of room for the guitar to stretch out in the mix. In that case, the close mic on the guitar got panned hard left and the distant condenser mic on the guitar got panned hard right. The close mic was up in the mix so the listener identified the guitar as being "over there", and the far mic was tucked under to just give some sort of presence on the other side.
It takes time to learn it all, but you should make the panning desision before you even record. That way you know if you even should put up a second mic.