The Crying Child Trophy can be obtained after finding all of the clocks and finishing their puzzles. See Universe End Ending for more details. The Fredbear Trophy can be obtained once you talk to Fredbear while playing as Fredbear. The Chica's Magic Rainbow trophy can be earned upon defeating Chica's Magic Rainbow in the Geist Lair. See Chipper's Revenge Ending for more details. The Chipper's Revenge Trophy can only be obtained once you find and beat Chipper's Revenge.
The Scott Cawthon Trophy can only be obtained by beating the game after beating Scott on Hard Mode. This trophy can also be obtained by beating Security on Hard Mode. The Security Trophy can be obtained by beating the game after beating Security on Normal Mode.