QuickBooks Not cutting it… Alternitives

I would like to know what you use for your business. Here is the scoop my boss is running a PC repair center as well as retail store using QuickBooks point of sale in addition to accounting. Here I what is wrong, we have to hand enter quotes in to Accounting using QuickBooks part numbers.
When we install a product and the customer may want to put it because like a credit and have us bill for it the part stays in inventory causing false inventory stock. I would like to find something that will allow us to do quotes, and work orders all in one program
I know it?s a stretch as far as finding something any ideas???

Thank You
– Jon King