Problem With Texture Baking in Blender

[buubbleguum Emerald]

First off I'm not posting this in the right section of the forums, but I need help with blender and this is where I would usually turn. 

I've been following a tutorial to make a pair of seamless shorts. It involves using two different UV maps and then baking the texture that is created using one map onto the standard SL UV maps that clothing creators use. You can find the tutorial here!! I was able to use this tutorial on a pair of pants I created in the past and it worked fine, but now no mater what I do, when I bake the texture it is always rotated 90 degrees. Here are some pictures to give you a better idea.

These are the shorts on the custom UV:

 

and the shorts after I try to bake them on the SL UV:

 

 

If anyone knows what I'm doing wrong or any way I could fix this it would be appreciated :)  

[Syle Devin]

When you added the material with the texture of the pants you created did you set the mapping to UV instead of generated?

You have to do that or else Blender won't use the uv map to apply the texture but do it's own thing instead.

[buubbleguum Emerald]

Yes I have the mapping set to UV