Does anyone have problems with the 502 precursor being too high?

The GC counter rolls over at 999,999...but 100,542 is still a lot!

Great drawing, thanks. That setup makes it difficult to figure out pressures/flows.  The path of least resistance is all of the 530 pieces unless the methanizer and the connection from that to the FID is restrictive. 30.14meters of 530uM with 12psi to an FID would be 15.769 ml/min at the FID.  The pressure at the tee to the MSD is just barely less than 12psi, and the GC Pressure/Flow Calculator says at 100°C that 11.985 psi would result in 1.119 ml/min into the MS. 

Even if we discount all the rest, 12.0 psi, or a tick less, at the head of a 30x.25 column into the MS would result in a flow that is in the typical range.

So the remedial cleaning would be what I would recommend.

So I've heard that cleaning the quads can be tricky, I've only ever really cleaned the source. Is there a detailed manual on how do this remedial cleaning? 

well, wow!  I remember setting one to 999,999, pressing start and it rolling to 000,000....but it must have been that I set it to 9,999,999 or 99,999,999 and it rolled over. That was probably 15 years or so ago. Amazing. A new high score winner. I thought the one I touched this week with 202,000 was a lot!

Agilent does not recommend that operators perform quad cleaning as the chances of causing damage is quite high without training.  I would suggest you contact your country's Agilent field service and schedule a visit.

Will do! Thanks for the help!