jetmaker, you need to show traceability from your loads source to the post-processed output, through the stages of FEM creation (geometry sources from your CAD drawing tree), derivation of material allowables (material qualifcation tests, MIL, etc), properties within the FEM and how they were derived (fastener stiffnesses, equivalent stiffness for non-descreet items, etc, etc). The next stage is to show how you have applied the loads and verify they relate to the inputs (SPCFORCE balance, etc). You will need to show that the FEM gives balanced loads and does not utilise any automatic constraints (AUTOSPC). It is normal to run your FEM without boundary condisitons (like a normal modes SOL 103) to show rigid body modes and the first ten or so normal modes of vibration. There are several other checks that you should perform on the FEM, some more valuable than others (loading and model dependencies). The internal loads, stresses and deformations that come from the FE/FEA are then used as a basis for the rational stress analysis. It is very unlikely that the FAR can be shown directly from the FEM work, asubstantial work is required, using the fully validated and verified FEM as the source for the stress outputs.
In my experience the FAA , CAA (UK) and EASA all buy off on the FEM/FEA provided adequate v&v is included in the documentation. If holes (in the data) are apparent the whole MoC of the aircraft can be cast in doubt, invariably re-doing the FEM (or a part of it) has significant downstream costs in both time and money.