PM me if you want to discuss. I am the MD/PhD forum moderator too.
If you want a significant research job (i.e. 50% or more protected time and startup package), you often need to do a fellowship or instructor level position to secure independent funding before starting a job at full assistant professor pay. This isn't everywhere and every situation, but is common out there, especially at the bigger name institutions.
These instructor/fellowship jobs typically pay more than residency pay, but not attending pay. $100-$200k range is typical. I suspect that's what we're seeing from the MSKCC grads we're discussing, though I don't really know. I've known some people over the years who have sat anywhere from 2-5 years in such positions before successful transition or giving up. Even these positions are not unlimited and somewhat competitive to obtain.