No Idea

I think that you have done a lovely job so far your hull looks great.  As for the capping rails I always like to use wood/aliphatic resin when I can as its so strong and wipes away so easily too.  If your issue is gluing through the paint; just remove the paint on the glued surfaces and its job done.  Keep the updates coming. 

You are making a very nice job of this ship its looks lovely.  If I could comment I would say that there are a few things that could make your building a bit easier for you.  Firstly as has been said earlier just see the planking pins as temporary and use them just to hold whilst the glue is drying.  I like to use clamps too so maybe invest in some cheap ones just to help you along.

Cutting a rabbet into the stem also makes the planking easier as the end of the plank sits where it should whilst you glue, which leaves you to work on the rest of the plank while working along the hull.  Also a good tight joint beats any amount of glue on a lesser joint - The reason I say this is because the bulkheads look like they could have done with just a little more time on them to get the angles perfect.  This can take literally days!

You have some very good skills so trust your instincts - I think that this will be a very nice build indeed!  Keep up the great work

The original poster has said that this is his first ever model and as such is obviously new to boat building.  Its very difficult to get the precision of build that more experienced builders get as this takes time, patience and many mistakes along the way.  To say that major re-working is a necessity on the first build is a bit off putting for a new builder.

Peter Y its ok to use filler but leave the surface rough so that your adhesive has something to bond onto.  As your building skills get better you will require very little filler indeed if any but it is needed now to get the shape that you want.  I personally would use a two pack filler in your case such as easypol - I hope this helps mate.