which area of government regulates, companies that do storm drain work. like on city street and new developments?

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It varies by the state.

In many places, the local zoning board handles this. A developer who fails inspections of his plans and actual work will find the city refusing to "designate" his development'd work as public streets and all of a sudden he is trying to sell houses which come with liabilities, including for their storm water run off.

The developer submits a study and plan, then it depends on how backward or in the developer's pockets the local board currently is. Most such zoning boards have a tipping point where people wake up and realize the costs of unregulated development. One or two floods and suddenly Walmart is allotting land for retention basins.

Now, in some places the Army Corp of Engineers has had a rather large say about such things, in recent years, as they're the ones in charge of navigable streams and such. Depending on the state, the local state's EPA might be required to sign off on large developments as well (not on single houses, but on a certain amount of land and above.) Trump is currently attempting to strip both of them of such powers.

There was a time when the guy who was elected to be in charge of the ditches was a rather important local official, because he was the one who decided where all that extra flood water went. This was one of the classic patronage jobs in rural counties.

Usually "city works" and possibly "sanitation" if you have an issue where a storm drain meets the city sewers. It's usually best to call both because their areas of responsibility may cross.