Specific details matter in this context. In general, if you change the accuracy and the model fully regenerates then you are good in the context of that model. Accuracy is critical in data sharing (copy geom, merge etc.), if you use any of the top-down data sharing features then all models of a design should share the same accuracy setting (absolute with the same value). If use multibody modeling, then all models in a design space also must have the accuracy matched.
I would not just accept the floor value that Creo is offering when you set the accuracy as this value will be different among models and render them incompatible with data sharing functions. Lower accuracy setting will increase regeneration time. In light of this you should set the value low enough to resolve the smallest feature you need on a model. This varies with design requirements and manufacturing tolerances of the processes used to make the parts. If your mfg process can hold +- 0.001" then I would set the model accuracy to be 0.0001" as an example. This ensures that Creo should always reproduce features as small as 0.001" without any issues in the geometry kernel.
I would really encourage you to work out an acceptable absolute accuracy setting for your use case(s) and set up start parts for that ASAP. You will potentially be in a world of pain if you have a complex design geometry that is failing due to an accuracy mismatch between models. I have had to fix this type of issue for clients in the past and it usually requires that we recreate their design data using proper techniques from start parts, not fast or inexpensive to resolve.
