Yes, remove the hella dark tint.
Yes, secure the pod filter - if it's not secured they were within their rights to defect you for it. Hell, I've been defected for a stock bov! Making a couple of brackets by cutting strips from a sheet of ally isn't very hard.
And yes, it really does depend on the inspector you get on the day.. when I took my 32 over with a fresh RB30DET (hadn't changed numbers yet) I think I got the best possible inspector I could get. Yes the engine was a whole litre larger but it only had a little RB25 turbo on it and looked pretty well stock under the bonnet. When he handed me the keys back he said "thanks for that, I _love_ skylines!"
I passed with height/damper adjustable coilovers, whiteline swaybars, adj. castor & camber bushes, full exhaust with a shitty cat, pod filter (bracketed down), button clutch, 3L, ebc and some other stuff. The only thing I didn't go over with was my 2-way diff as that would have been a deal breaker!