The book I am looking for is about a female special forces officer. Her Alpha and Beta ports were turned off after an incident and she had to place her hand inside of a helmet to connect to it. Later in the book she steals a ship and escapes a space station. I'm aware this isn't much to go off of.
It might be the book below - Apart from the hand in a helmet to reconnect her ports the rest fits.
Imperial Intelligence couldn't find them, the Imperial Fleet couldn't catch them, and local defenses couldn't stop them. It seemed the planet-wrecking pirates were invincible. But they made a big mistake when they raided ex-commando leader Alicia DeVries' quiet home world, tortured and murdered her family, and then left her for dead. Alicia decided to turn "pirate" herself, and stole a cutting-edge AI ship from the Empire to start her vendetta. Her fellow veterans think she's gone crazy, the Imperial Fleet has shoot-on-sight orders. And of course the pirates want her dead, too. But Alicia DeVries has two allies nobody knows about, allies as implacable as she is: a self-aware computer, and a creature from the mists of Old Earth's most ancient legends. And this trio of furies won't rest until vengeance is served.
This is an expanded version of Path of the Fury from 1992 which includes a prequel story