Thanks for the information on your die Yama. I am running a 5975c MSD and having the same trouble with the threads of the transfer line wearing out. It appears that some brass material from the transfer line column nut is getting deposited between two of the threads and causing difficulty with installing new columns. I used to be able to thread the column nut by hand but now I need a wrench to get it past the damaged section.
I swap columns frequently and noticed that the nut is beginning to squeak more as I tighten it on the transfer line. I have not had any trouble with leaks thankfully, but I fear It's just a matter of time until things won't seal up anymore. If worse comes to worse I will trying running a die over the marred section of the threads to clean them up. Cheaper than a new transfer line at least if it works.
Anyone have any tips on avoiding the damage in the first place? I'm generally very careful when threading the nut but I am probably over tightening it or something.
You could use one of these:
http://www.restek.com/catalog/view/3354
Use a fused silica transfer line in the MS interface then leave maybe a half meter of transfer line in the oven and use the union to join your column to it. Over time you can replace the column several times before you need to replace the transfer line into the oven which should reduce wear on the MS hardware.
The ferrules in those fittings take a few days to shrink and seal perfect, but once they do you are good to go. You will need to find a 3/16" wrench though to tighten the fitting, but otherwise they should work well. You could use a fused silica press tight, but you would need to replace it every time you changed the column and cut a little of the transfer line each time and that runs the risk of getting fragments into the MS from cutting the line.
Also, since the line makes a restriction into the mass spec, you can use it like a no-vent fitting and swap columns without completely venting the MS, just shut down the turbo pump, change lines and pump down and are back in business faster because little air or water gets into the analyzer.