@easedel_MLBTS
I feel like we've had this discussion before. 
You literally have to fix the 40 man roster before you begin. All the players with no options have to be removed. As do all the older players with too much service time. All of these guys will be DFA'ed or waived when ST is over.
The reducing the 40 man roster to 26 men used to work in previous years, but not anymore. You have to propagate your 40 man or the CPU will do it for you. Even during the season.
What I like to do, is fill out my 40 man roster with A ball players that are complete garbage. This way they won't get claimed off waivers, and I don't care if they do.
The only non-MLB level guys I put on the 40 man are the ones that will get picked up in the rule 5 draft. Although, I usually trade those guys away if they run out of options.