One thing I would recommend, but may be viewed as a PITA, is taking the time to actually setup and calibrate your equipment in Beersmith.
Take the time to actually figure out and enter things like evaporation rate of your 'Boiler', deadspace in your MLT, entering in the actual material it's made from, things like that (you can find these under the Mash Profile and Equipment sections).
When I first used it, I picked equipment and mash profiles that looked 'close' to what I was using, but my efficiency suffered as well as my final volume coming up short when the boil was done.
I did an about face and actually took the time to enter in actual numbers, and things went much smoother come brew day, not to mention more predictable.
I think this probably applies in most aspects when brewing, not just Beersmith.