Did you just edit existing files ? Becauce you have to add your file name in entity.manifest ONLY if you add a new file, not if you want to replace an existing file.
Are you sure to use "Mods-Entrenchment v1.01" folder to add you mod ? Have you create your mod's folder or just copy all files in "Mods-Entrenchment v1.01" ? Because you have to place your files in a folder, like "My Mod" for example, and place it in "Mods-Entrenchment v1.01" folder.
Did you respect the folders hierarchy ? For example, if you want to replace the SOASE's English.str file, you have to respect the original hierarchy, in this example the file is in a subdirctory named "String", you file need to be place in a "String" folder, in your mod's folder. Like that "My Mod\String\English.str"
Never add "Entrenchment\" subdirectory in your mod hierarchy. For example, even if you want to replace the English.str file of Entrenchment add-on, which is in "Sins of a solar empire\Entenchment\String\English.str", you just have to use "My Mod\String\English.str"
Am I clearly ? ^^