New alternator and fuse but battery not charging

What is your question?

2013 Hyundai Accent 1.6 GLS. I shorted the battery by accident and it fried the 125A multifuse. Replaced the fuse and still had the battery light on and 11.7v at the battery. Replaced the alternator but was still getting 11.7v. The charging system light went away. Took it for a quick 3-mile drive and it's at 11.4V now. I read on another thread that it could be a short to ground. Frankly, I'm not electrically-inclined, so not quite sure what I'm looking for. There is a brown ground wire I connected back below the alternator. I also am not certain how I would test the output of the alternator. The mulitmeter's red to the alternator and black to the chassis?