I have two product flavors, free and pro.
The launcher activity for both is different.
But Android studio expects the launcher activity to be in AndroidManifest.xml under src/main/.
Gradle is building both flavors correctly but IDE is not able to pick the correct AndroidManifest.xml from respective product flavors like src/free or src/pro.
This is happening even after choosing the correct build variant as FreeDebug or ProDebug.
This post has the answer you want. [What Product Flavor does Android Studio build by default in build.gradle?
You can click in the bottom left hand corner and open a box called "Build Variants" Then select the flavor (variant) you wish to work with.