Bugs To Birds: Use the Quack-o-Ray to morph 15 Blood Flies.
You need the Charge Boots: Once you get get to the entrance of the facility, hack the terminal and fight your way through as you normally would. Don't hack the second terminal though. Instead look for an alcove with a floor switch. Quickly jump up, step on it, and use the Charge Boots to get to the previous room. Go through the newly opened door before it closes, and you'll be on a series of walkways and balconies. Fight your way past the enemies, being wary of your health. The bolt is at the end.
After completing the mission Explore the docks, instead of taking the taxi back to your ship, look to the right. You'll see a Hypershot platform, zap it jump on it, then jump onto the next platform suspended above the sea. Complete the short Hypershot course, and the bolt is on a small platform at the end.