As I remember...
Regarding service to E.33rd Street Bayonne after Aldene and before Conrail...
Track 4 was used exclusively for CNJ 'scoots' between w.8th and E.33rd and the track was actually signalled for operation in either direction, controlled by operator at BV tower. In case of signal malfunction, scoots did run on either of 2 remaining mainline tracks to E.33rd with train orders. Track 4 did continue eastward to HY Tower but just east of E.33rd Street station, 2 rails were removed to thus make track 4 a deadend in either direction. Track 4 westward from HY was used then as a yard track to back out coal trains from Jersey City to Weehawken while awaiting clearance to go to Weehawken on the NYC line from Phillips Street.
Track 1 and 2 did remain in full service between BV tower and HY Tower in Jersey City and were fully signalled - not dark. CNJ freight trains used these tracks until at least 1972 to access Jersey City CNJ yard. After 1972...need someone else to update.
B&O passenger service ended as stated before in 1957-1958 to Jersey City. Freight service remained as a joint B&O (eastside yards-Phila) - RDG to Bound Brook and CNJ to Jersey City. The B&O's new GP-30 diesels were purchased for high-speed piggyback service from Jersey City to points west. It was not unusual to see up to 4 GP-30's operating on a Trailer Jet each evening. There were at least 2 piggyback trains and 1 freight daily, #685, plus coal extras to Cranford, NJ (to Staten Island). Each evening #99 was called as an extra to 'clean out' mixed freight from SIRT at Cranford.
Lman