Update. I've got a second base coat on and the few spots I was worried about have blended in a lot more now and is looking a treat.
On another note I've had a look at levelling the frets. The neck has a fair bit of back bow with no truss rod tension. How much is normal and how much should I expect it to change once it has string tension. I will be using .010 gauge strings. I'm a bit worried that the string tension won't create enough relief and I won't have any truss rod adjustment. It has almost 2/16" back bow from the nut to the 10th fret.
At the moment I have it clamped to the bench with "straight" edge to try and bring it back some.