Color mismatch between Lightroom when edits done in Photoshop

I am having a lot of problems since I upgraded to Photoshop 5 and Lightroom 3.  When I go to edit a particular photo in Photoshop from LIghtroom the photo changes once I have saved it back into Lightroom (despite making no alterations whatsoever in Photoshop).  I am using Adobe 1998 colour space on both programs and can't figure out what is going on.  The new photos saved back into LIghtroom are slightly more contrasty.  Can someone help me?  I am only noticing this because I have run into a lot of problems with printing recently and I am trying to get rid of some of the variables that might be causing this.  Thanks in advance!

Also wanted to mention that I have calibrated my monitor and I have NOT selected the "desaturate monitor colours" box in the color settings dialog box.

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