all steps should have the same rise?

Yes, All steps means all steps. The language of these documents is generally literal. They say exactly what is intended. It is usually more clear is you consider it in the the context of full sentences of paragraphs. The full sentence you refer to says

That applies to each stairs in it's entirety. It it meant to apply separately to each section between landings, it would have said flight, not stairs.

Normal construction tolerance is allowable.

That will be non compliant imo. The first rise (and the last rise) should be adjusted to allow for floor finishes. Is the stair fabricated yet?

What did the construction details show at the threshold and foot of the stair? If something has been built incorrectly, that would be your recourse. If it was designed incorrectly, that would be another angle.

Has the stair got no allowance for a floor finish at all? If that was the case, you may need rethink your floor finish.

Oddly, UK regs state only "flights" must have the same rise, so it's hardly dangerous.

Section 1.1 and 1.2

Changing the rise, ie adding to the thichness of the threads of the lower flight to accomodate the 25mm might be the safest and eassiest way.

My fag-box calculations; for example if there are 4 risers to the landing 200mm each.

The new risers will be 194mm, so the bottom 3 threads are thickened by 20mm, 15mm and 10mm each.

I dont know if a difference of 5 or 6 mm is acceptable above and below the landing, it appears it is in the UK

Edit;

the 20, 15 and 10mm are a bit out, I'll have another go later when I've time.

efit again; should be 19, 13 and 7mm,

So a sheet of 6mm hardboard , one on third step, 2 on 2nd step and 3 on bottom step gives you 194mm risers below the landding and 200 above

Is there no design? There may be a typo, as I don't follow "The one of housing builds".

True, but they also have other requirements that don't apply in Ireland. Hard to be aligned on every issue.

The TGDs are only one method. But a step that deviates by 25mm is a big deviation. Splitting it over a number might be acceptable, if there were enough steps to split over.

I share Syds view, I'm curious how we got here and how the door and stair details are so misaligned. Fixing the door might be easier.

Still not really clear what OP is saying, a bit muddled grammatically.

But regardless, if there a one off house being built, then there is a design. If that design has such gaping holes in it, I'd be asking why