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Suggest that you find a reputable and skilled tile company. If it was a vinyl pan, it may be possible (although not ideal) to tear out the floor and lowest 6-12" of wall tile to replace the pan. It's really something that cannot be easily answered without a close professional examination of the particulars of your shower conditions.
Unfortunately, most new homes (particularly those built by developers) are built with little regard to quality and durability, by less-technically-savvy tradesmen at the lowest price point possible to appeal to a prospective buyer's sense of value.
Should you be concerned? Most of these sorts of issues are not conditions potentially leading to structural failure but rather finish failures and just generally less-than-desirable quality.
There are many industry specification references for quality, and likely your builder references a spec which is more forgiving of such issues. For instance, a spec for drywall might say "out of level or line x inches in x feet" or simply "imperfections not visible under normal lighting conditions when viewed from x feet away". You may want to research which specification may have been referred-to as quality guaranty when the home was sold.
Of course, this is a generalization and does not apply to all new construction. One would want to engage a building professional to determine what may be happening in the particulars of your home.
It would be difficult to prescribe a proper floor without specific knowledge of the conditions - how much moisture, and where is it coming from? As well, it is always better to think of most anything in a home as a complete system. By that I mean, proper preparation of the substrate (the concrete) including some manner of vapor / moisture barrier and/or other assembly to mitigate the moisture or its effects.
Additionally, consideration of the space function and/or requirements for use, aesthetics, etc.
There are moisture-resistant / moistureproof flooring materials such as LVT. However, I am always concerned that these non-breathable coverings might trap moisture beneath, and create ideal conditions for mold growth - a problem which may be invisible but harmful.
I know... the concern and prospective solutions may seem simple, but - for the RIGHT answer, no so much. Summarily, there are rarely easy answers to such questions without a more-thorough analysis which can / should really only be done by professional examination of the space. For that, engage a professional designer / archtect and/or a well-educated remodeling professional.
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