Neck stability for one... it seems from day to day, the neck moves... I went for a period of about 6 weeks without the truss rod cover on it as I found myself adjusting the rods at least once a day.
Couple that with the fret job I had to have done to make the first five frets playable...
As my band plays in Eb, I have to set up the bass to that tuning. Should I have to tune it in standard E tuning, it will require a truss rod adjustment. If I lean back in my chair while playing the bass, the slight weight of my hand while in that position will pull the neck enough to bottom out the strings.
So, in essence, I have a unstable neck that I am hoping will settle with age.
Fishheadjoe
Last year I mail ordered a 2011 Fireglo and when it arrived the action looked high and the intonation was off. So, I brought it to my tech's shop for a set up. He took a good look at it and informed me that it wasn't a set up issue but. He claims now and then you get a Ric with a bad neck. It can usually be corrected but that I should expect it to need a lot of attention and possibly get worse over time. I sent it back that day.
This summer I bought a 2012 4003 on sale from Pick of the Ricks and it spent the day in a hot UPS van and was still in perfect shape when I got it home. The neck is straight as an arrow and solid.
Perhaps you should take it to a tech with Ric experience and see what they think. I hope you can resolve this. A good Ric is hard to beat.