Its possible...the bell housing might be "tweaked" or made out of spec,or perhaps there was some strain on the transmission from a mount that was over tightened (or loose ) ,that would put things in a bind situation..
You may be able to pull the pilot bushing out with a slide hammer puller,but it'll be harder to drive in the new one, with the clutch fingers so close...be easier with it out of your way..
Seeing the noise wasn't there for 8 miles,then started again,kind of points to it being a loose gear ,the gear lube is thick at first starting off "cold"--once it heats up and thins out it'll let things rattle,rather than tend to silence them..
I used to put STP or Motor-Medic in my SM465's,but it did make them a bear to shift in frigid weather after a cold start..it did reduce a lot of noise in warmer months..the one I had in a '72 K5 I swapped in rattled from day one,the output shaft splines were hogged out,and it eventually ate the coupler between the trans and NP-205,and stripped it out...one day I let the clutch out on a hill,and "Blagghhhht"-"eek:-it refused to move..putting it in low range worked long enough to get it off the busy road,but not home!..
After I replaced it,it was blissfull silence,and I had tried using a lot of RTV in the coupler splines in hopes it would prevent the worn splines from chowing the new coupler up in short order,but the buzzing & rattling returned after a few weeks...it never stripped again ,but I never quite trusted it either...