I surfaced the area I could reach, then pulled one board at a time, rotated it 180 degrees, and did a pocket toolpath which removed the uncut area, cutting deep enough to make it flush w/ the aluminum T-tracks. This allowed me to just re-run a file which didn’t have a tool change command to make it go a bit more quickly.
@SLCJedi has a post showing doing the technique @cheu suggests: