Here is my .02.
There are flats boats, skiffs (flat bottom) and bay boats that might meet your needs.
IF you go with a skiff like Carolina Skiff, and plan on running in any chop, you will want the longest one you can manage. The 18' is nothing more sophisticated design wise than a heavily built fiberglass jon boat hull. You need the longer hull to bridge the chop or it will beat you to death. Tend to run wet in a chop with wind. They tend to be VERY stable fishing platforms and built like tanks. They usually have shallow draft but tend to need a little deeper water to plane off than a flats boat. Most are not fancy and have basic finishes.
Flats boats shine for getting on plane quickly in shallow water, running in very shallow water, and poling easily. They have low gunnels to help minimize wind drift and often have sophisticated hull designs to minimize hull slap when poling. Typically they have a flat deck and no seats or a cushion on the deck type seat. They are 100% designed as a fishing machine. The trade off can be comfort. Adding a comfy drivers seat with back support is an upgrade and might not fit the deck design. With trim tabs you can modify your run to minimize spray blowing back into the boat. Unless you are crazy or reckless, you don't want to run big/rough water with one. We got caught in storms in my BIL's 18 Hewes a couple times and it was scary. Definately could run the shallows of Mosquito lagoon and get back in skinny water, but it was creepy going outside the inlet to the ocean. Many flats boats nice finishes and are well designed for fishing skinny water.
Bay boats are a compromise. They have steeper bow profiles for cutting chop, wide shallow V transoms for floating in semi- skinny water, and tend to have more comfortable seating/fishing arrangements than flats boats. They are meant to be a versatile boat for shallow to bays to nearshore fishing. Family has run a 21' sea pro for 13 years. Needs more water to plane off than a Flats boat but can plane with 2ft of water. A bit less than 2ft with the trim tabs and proper weight distribution. Has all the bait wells, storage lockers and space for extra trolling motor batteries. Nice finishes deeper gunnels, more options for T tops, leaning posts, rocket launcher rod holders, down riggers etc... Overall as an older guy, I prefer the comfort of a bay boat. Unless you are a shallow water specialist, you will get the most comfort in more weather conditions from a bay boat. Fished out of a 24ft Black Jack last spring and it was NICE. Very comfortable dry ride in a snotty 2-3ft chop.
Back in the 80's Mako made a quality fishing boat. They were quite heavy and solid but as most boats in that time frame had plywood core that would eventually get water into the core and rot out, loosing integrity. Don't know anything about todays quality of construction.
The best thing you could do is to water test whatever style of boat you are interested in on a windy choppy day. See how the boat rides. Can you adjust the trim to get a dry ride with a 1/4 wind? How bad does it pound? How are the seats? Does it have the storage/livewells etc that fit the way you fish?
Hope this helps. Let us know what you get !