I have been using ETAP in heavy industrial and commercial applications for about 20+ years and it does a very good job. It is somewhat expensive and is priced based on each module you add beyond the basics (load flow, short circuit). And you have annual maintenance based on same. Over the years...
You can use buck-boost transformers to provide the necessary voltage from 240/3 to 208/3. Although as some have pointed out the wiring depends on requirement of the load. We have used buck-boost in many configurations including providing 240V/3 phase from 208V/3 phase wye systems up to 800A. But...