I-80 and I-287 in Parsippany, NJ where NB I-287 crosses under I-80 while its SB counterpart crosses over it.
The Garden State Parkway at NJ 3 in Clifton, NJ where the NB Parkway goes over Route 3 and Allwood Road while SB crosses under the 2 roadways.
US 202 & 206 used to have separate grades at US 22 in Somerville before the Commons Mall was constructed. The current EB to NB ramp under US 22 was the NB lanes of US 202 & 206.
In San Diego there is part of CA 75 where SB has a flyover a beach park entrance while the NB side has an at grade signalized intersection.
In Fort Myers, FL on US 41 at FL 82 the NB lanes of 41 flyover the intersection while the SB lanes pass through it at grade.