That sounds like draining the green antifreeze from the "fresh water" system which is not typically needed unless you are replacing the 50/50 mix. I would not remove that otherwise as it has rust inhibitors and such, the absence of which will allow for rust in places you don't want and can't see.
What I would recommned you do is put the pink non toxic antifreeze - but only the kind as noted above meant to be good to use in engines as some of the RV and Pool antifreezes have alcohol and can become less effective and may also damage seals and other parts of the system. West marine has a good -50. In Mass I go a step further and use their purple -60, but most folks around here find the pink works just fine.
For my universal i remove the intake hose from the sea cock and put that into a bucket to run fresh water from a hose for a while until the engine warms (might to need to add an extension hose, I also change oil and filter at this time). This running of fresh water also helps remove salt from the system - especially heat exchanger and riser. When ready I then shut hose off and suck up all water in the bucket at which point I then add at least 2 gallons of the pink (purple in my case) antifreese. This puts the antifreese through the sea strainer, raw water pump, heat exchanger, and water lift muffler before it is seen coming out the exhaust. It is also a good way to see how well your raw water pump is pulling water. An alternative way is to keep the hose connected to the thru hull, shut the thru hull and run the fresh water hose and then the antifreese into the opened top of the sea strainer. Loren's suggestion provides a simpler way to do the same thing.