Both urine and female ejaculation come from the urethra (although there is some debate as to whether it comes from Skene's glands which are just beside the urethra), so even though the passage from the bladder is blocked during female ejaculation, there may be some traces of urine in it. Also, the color and smell of female come varies from woman to woman, and at different times during the menstrual cycle.

The main thing is to talk to your partner about it beforehand. Obviously you really like to squirt because it feels fantastic, and you shouldn't let a little thing like smell get in the way of that. So talk to your partner about it, make sure you're both comfortable with it. Then put a towel down anyway and have a shower afterwards if you like. Don't be embarrased. Pleasure is paramount.

My boyfriend has been very determined to make me cum with out touching my clit (he wanted me to cum through my g-spot). So a few weeks ago i read up about it online and i finally understood that the "pee feeling" was just a feeling and i wasnt worried about peeing on him anymore. I could let go and he could make me cum. We tried it that night and he made me squirt. TWICE. i thought that was the coolest thing ever. The orgasm felt good but it didnt seem like the "magic" that everyone made it sound like. I figured i was different. But i still liked cumming that way. So my bf thinks its awesome he can make me cum that way now. We have done it probably about 6 or 8 times now. I have noticed that the bed smells like piss now. According to alot of articles, i thought i couldnt pee when i was that excited. So is it actually cum? or because i am not feeling the "magic" is it pee???

There is a lot of variation in how squirting feels for each woman. And for each individual woman some times it'll be more intense than others.
Perhaps because your boyfriend has hyped it up so much that what you feel is a let down, whereas in fact if you look at how you describe it, you say it's "the coolest thing ever" so you clearly enjoyed it to some extent!
As for the smell of the ejaculate, since it comes out through the urethra, there may be faint traces of urine that come out with the ejaculate. But the ejaculate itself is not urine, it's more akin in chemical composition to male semen (without the fertilising sperm).
Either way, it feels good and it makes both you and your boyfriend happy...