chore(gradle): reorganize and clean up libs.versions.toml

Reorder dependencies and bundles in the version catalog for clarity and maintainability.
Group related libraries and plugins, remove duplicates, and improve structure without changing versions.

Author: hanrw

gradle/libs.versions.toml

@@ -5,7 +5,7 @@
 agp = "8.12.1"
 app-cash-turbine = "1.2.1"
 assertj-core = "3.27.4"
-central-publisher = "0.0.6"
+central-publisher = "0.2.0-alpha.1"
 # Gradle plugins
 com-linecorp-build-recipe-plugin = "1.1.1"
 dependency-analysis = "3.0.0"