Cubase 6.07 batch export issue

I am on Win7 64b using Cubase 6.07 64b. Most of the plugins I am using are Nomad Factory and URS.

I am making stems for a client and I am using the batch export feature. When I re-import the audio files into another project to check it sounds right… all the effects are gone. None of the effects exported… it is quite obvious as in addition to the levels being off high pass filters, etc are gone. I also tried it real time. I double checked the manual and it says all effects should be included by default. Am I missing something? This is on new install of Win7 I have not tried reinstalling, etc yet I thought I would post it up here first. Thanks!