Hi,
Thank you for your post.
According to your description, I’d like to confirm the following:
1. Does the Mom install on the same server?
2. What do you mean about “can get alerts from FCS MOM over to SCOM”? Could you please tell us more details?
As far as I know, if you want to migrate from Mom to Operation Manger 2007. Microsoft supports migration scenarios: side-by-side on the same hardware. For more information, please refer to the following article.
Migrating from MOM to Operations Manager 2007
http://technet.microsoft.com/en-us/magazine/cc137977.aspx
Regards,
Nick Gu - MSFT