Sarah, do you have experience with any facet of calculating the loan loss reserve? Lending or credit quality in general? If not, being new to auditing and/or community banks will render this a very difficult area to audit well.
At the least, you'd want to see that management is conducting at a minimum, a quarterly analysis (should probably be monthly), that their inputs track to historical loss results by portfolio segment, that the analysis uses both FAS 5 and 115 methodology... you'd want to compare system-generated past due data to the assumptions included in management's analysis. See that the watch list/substandard, doubtful, and loss loans are accurately identified in the analysis....
That's what comes to mind off the top of my head. Maybe some other folks can chime in...