Yess it doesn't feel right but the solution is to throw the original relics away and only store / rebuy the replicas.

The armoire and glamour dresser don't really store the item, only a number in a data base and thus they can't save the customizable stats on the relic weapons with this system. And since there already is a solution with the replicas to essentially remove these custom stats - and also to circumvent the need to store them at all - it's unlikely SE will invest further ressources into this.