The rougelike game design combined with the huge amount of choices that can be made in both encounters as well as ship management makes FTL a highly strategic game as you never quite know what the game is going to throw at you.

There are many decisions that can be made in the game, such as what parts of an enemy ship to target (their shields, their weapons) or where to concentrate your defensive strategies, such as powering up an ion engine to run, or powering up ones shields to stay and fight. These choices can all effect the final outcome of the game, so it is up to the player to make the best decisions at their disposal.

There are also many choices of ships to use and equipment layouts for each that can be tweaked. Depending on the ship used and what equipment is used or where it is place can greatly affect how the game will play out as well as how the game will need to be played. If choosing a fast ship with low shield power, it will be best to outrun a lot of encounters. Where as if choosing a slow ship with good gun capabilities and a high shield power, a good strategy would be to go in guns blazing for each encounter.