I don't buy that. The minimal project Gradle build script does exactly 4 things.
1. Enable the Kotlin Plugin
2. Set the package metadata (group and version)
3. Add Maven Central as a repository (equivalent of say npmjs.com)
4. Add the Kotlin Stdlib as a dependency.
You may have accidentally enabled extra stuff through the new project wizard which is admittedly more complex than it should be (especially if you are using IDEA Ultimate with many plugins enabled).
I suggest the following flow:
New Project -> Select Gradle on the side panel -> Check the Kotlin Build Script box -> Select only Kotlin/JVM.
This should set you up with a very minimal project with exactly 3 files (build.gradle.kts, gradle.properties, settings.gradle.kts).
From here you can either create a package i.e go for the src/main/kotlin/com/example/main.kt route or just create main.kt in the top level without a package.