I see you're in the Denver area, so I'm guessing you're likely not using true elevation for your building levels (I'm in Colorado Springs ... typically we use 100'-0" for the first level/floor).

Here's what I like to do: link the site DWG (with contours at correct elevations) into a completely separate Revit model.

I move that file's levels so that Level 1 (or whatever you call it) is at the true finish floor elevation as defined for your project. For example if architectural FF 100'-0" = 5584' above sea level, then 5584' is what I set the site model Level 1.

In the site model, I link the building model in and move/rotate it to align with the CAD lines, including moving it vertically up to the elevation above sea level. Then I create the topo element at true elevation and any related building pads. This is critical: After making sure no one else is in the building model (including yourself), use shared coordinates to establish the relationship between the site and building models. I could go into more details, but since Steve Stafford already did that, I recommend taking the time to digest his blog posts on Shared Coordinates: http://revitoped.blogspot.com/2012/0...t-summary.html.