Flooring – Ok to paint Kilz on wooding flooring with faced insulation beneath

Lots of questions (related to this Meta discussion). I will just tackle a few points I feel confident about answering.

Subfloor

The Schluter DITRA does not need to be on CBU so I would skip the 1/2" layer of cement board you are planning on using and make your plywood subfloor thicker (or just skip the CBU and keep your 23/32" OSB). CBU is not "stiff" enough to be a subfloor, it can be used instead of DITRA but it must be secured to a subfloor. It rarely makes sense to use 1/2" on the floor unless you are trying to make the finished floor come out to some specific height (for example to help the transition to another room with a different floor). If you are not goin gto use DITRA, you will want some CBU on the floor but the 1/4" stuff is fine.

Apply the modified thinset and DITRA directly to the plywood subfloor. Checkout Schluter's DITRA Installation Instructions for details on the subfloor prep and how to secure to DITRA to the plywood.

Toilet

Without a picture or diagram it is not really clear to me exactly what the issue is with the toilet drain, but that won't stop me from taking a guess :)

You may be right about getting away with cutting a larger hole in the subfloor to handle the bend of the toilet drain pipe. Are you sure the PVC drain will stick above the finished floor? Realize that the thinset between both the subfloor/DITRA (not very much) and DITRA/tile (more so) will add a little to your height, maybe between 1/8" to 1/4".

Have you measured the height of the toilet drain with the flange installed (just dry fit it to take a measurement)? The flange can be installed on the top of the finished floor (tile), on top of just the DITRA, or on top of the plywood subfloor. In your case you would probably want it as high as you can, so install the tile first and then glue the flange to the PVC closet bend. I think once you dry-fit the toilet flange you will see you are OK here.

@iLikeDirt covered a lot of important information, but I'd like to add something since the majority of the information assumes that there is a problem of excess moisture due to the concrete, while the expert assessment says it is actually dry cupping that is the problem.

Dry cupping implies that the interior humidity is dropping below the average frequently enough that the wood surface dries out. It sounds like they are suggesting that the vapor barrier between the slab and floor is probably doing its job correctly.

One way to help prevent this is to bring the wood into house and allow it to be exposed to the air within the home so the moisture content is similar to that within the home (acclimation). I like to assume this is standard practice and this was already done, but if you're using a special reclaimed antique pine wood, then maybe a longer period would have been desirable. Major seasonal humidity variation can still have an impact.

Do you know if there is a period during the year where it seems more prominent, or has it not been long enough? If I had to guess, it could be during the summer when the AC/dehumidifier is running more frequently. I'm not as familiar with the climate there, but in parts with cold winters you are more likely to encounter dry air issues during the cold months.

One thing that could be happening is that the glue on the underside of the wood is acting as a seal on just that side, inhibiting the wood from 'breathing' underneath. The only surface area for moisture to leave the wood is on top. A solution that allows the wood to better breath on the bottom, or simply avoids using glue or too much glue, might help. But then you need make sure the vapor barrier is doing its job or you will end up back where you started with too much moisture underneath, the expert seems to imply you no longer have that issue though.

You can still end up with this problem with engineered floors. It could still be a problem with an unknown source of moisture throwing things out of balance as well. I'd see what the neighbors are doing as a solution for your area and if they have similar problems before I spend more money.