Open the door and the box inside to find the upgrade. Move these out of the way to find the Master Override door to Tool Storage. Contact Beam upgrade: When you enter the Mining Deck from the tram station, you'll find some slidable kinesis boxes.This is the same room where you got the Ripper weapon for the first time. You can find it inside the Master Override crate next to the upgrade console. Ripper upgrade: In the Machine Shop on the Engineering Deck.

Here are the Master Override containers and upgrades I found:

To get Master Override clearance you'll need to complete the new 'You are not Authorised' sidequest, which involves gathering Crew Rigs across the ship. While there are upgrades and schematics scattered across the ship, the one guaranteed place to find them is inside containers or rooms locked with Master Override.

There are two ways to get upgrades for guns in Dead Space: you'll either find the upgrade while exploring the Ishimura, or you find an upgrade schematic and have to bring it back to the store for purchase. There are weapon upgrades in most Master Override crates (Image credit: Motive)

All schematics dead space remake