diff --git a/.github/workflows/documentation.yml b/.github/workflows/documentation.yml
index 5aba27ce9a..6aa63e2921 100644
--- a/.github/workflows/documentation.yml
+++ b/.github/workflows/documentation.yml
@@ -36,7 +36,7 @@ jobs:
     - name: Check C coverage
       run: doxygen Doxyfile
     - name: Check Java coverage
-      run: javadoc -Xdoclint:all,-missing -d doc/java -sourcepath java/api/target/generated-sources/java/:java/api/src/main/java org.ruby_lang.prism
+      run: javadoc -Xdoclint:all,-missing -d doc/java -sourcepath java/api/src/main/java-templates/:java/api/src/main/java org.ruby_lang.prism
     - name: Generate Rust documentation
       run: |
         bundle exec rake cargo:build
diff --git a/.github/workflows/github-pages.yml b/.github/workflows/github-pages.yml
index f1b855bdeb..50223b9a85 100644
--- a/.github/workflows/github-pages.yml
+++ b/.github/workflows/github-pages.yml
@@ -51,7 +51,7 @@ jobs:
       - name: Build with Doxygen
         run: doxygen Doxyfile
       - name: Build with JavaDoc
-        run: javadoc -Xdoclint:all,-missing -d doc/java -sourcepath java/api/target/generated-sources/java/:java/api/src/main/java org.ruby_lang.prism
+        run: javadoc -Xdoclint:all,-missing -d doc/java -sourcepath java/api/src/main/java-templates/:java/api/src/main/java org.ruby_lang.prism
       - name: Build with rustdoc
         run: |
           bundle exec rake cargo:build
diff --git a/.github/workflows/java-wasm-bindings.yml b/.github/workflows/java-wasm-bindings.yml
index 3f39c7a1d6..7fe24455a7 100644
--- a/.github/workflows/java-wasm-bindings.yml
+++ b/.github/workflows/java-wasm-bindings.yml
@@ -55,4 +55,4 @@ jobs:
       - uses: actions/upload-artifact@v7
         with:
           name: prism.wasm
-          path: java/wasm/src/test/resources/prism.wasm
+          path: java/wasm/src/main/wasm/prism.wasm
diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml
index 2c279f2f22..67f6af3b30 100644
--- a/.github/workflows/main.yml
+++ b/.github/workflows/main.yml
@@ -199,6 +199,15 @@ jobs:
         bundler-cache: true
     - name: Run Java Loader test
       run: PRISM_SERIALIZE_ONLY_SEMANTICS_FIELDS=1 PRISM_JAVA_BACKEND=truffleruby bundle exec rake compile
+    - name: Archive sources for TruffleRuby
+      run: |
+        jar --create --file java/prism-truffleruby-sources.jar -C java/api/src/main/java `ls -r java/api/src/main/java`
+        jar --update --file java/prism-truffleruby-sources.jar -C java/api/src/main/java-templates `ls -r java/api/src/main/java-templates`
+        jar --update --file java/prism-truffleruby-sources.jar -C java/native/src/main/java `ls -r java/native/src/main/java`
+    - uses: actions/upload-artifact@v7
+      with:
+        name: truffleruby-sources
+        path: java/prism-truffleruby-sources.jar
 
   lex-ruby:
     runs-on: ubuntu-latest
diff --git a/.gitignore b/.gitignore
index fcdec6fb0a..cddb8cfa25 100644
--- a/.gitignore
+++ b/.gitignore
@@ -42,7 +42,7 @@ out.svg
 /java/org/ruby_lang/prism/AbstractNodeVisitor.java
 /java/org/ruby_lang/prism/Loader.java
 /java/org/ruby_lang/prism/Nodes.java
-/java/wasm/src/test/resources/prism.wasm
+/java/wasm/src/main/wasm/prism.wasm
 /lib/prism/compiler.rb
 /lib/prism/dispatcher.rb
 /lib/prism/dot_visitor.rb
diff --git a/Makefile b/Makefile
index 039efee72c..0f6f5264d1 100644
--- a/Makefile
+++ b/Makefile
@@ -31,7 +31,7 @@ all: shared static
 shared: build/libprism.$(SOEXT)
 static: build/libprism.a
 wasm: javascript/src/prism.wasm
-java-wasm: java/wasm/src/test/resources/prism.wasm
+java-wasm: java/wasm/src/main/wasm/prism.wasm
 
 build/libprism.$(SOEXT): $(SHARED_OBJECTS)
 	$(ECHO) "linking $@ with $(CC)"
@@ -51,7 +51,7 @@ javascript/src/prism.wasm: Makefile $(SOURCES) $(HEADERS)
 		-Oz -g0 -flto -fdata-sections -ffunction-sections \
 		-o $@ $(SOURCES)
 
-java/wasm/src/test/resources/prism.wasm: Makefile $(SOURCES) $(HEADERS)
+java/wasm/src/main/wasm/prism.wasm: Makefile $(SOURCES) $(HEADERS)
 	$(ECHO) "building $@"
 	$(Q) $(MAKEDIRS) $(@D)
 	$(Q) $(WASI_SDK_PATH)/bin/clang \
diff --git a/docs/configuration.md b/docs/configuration.md
index 4b23b7f46d..cc54a7ab98 100644
--- a/docs/configuration.md
+++ b/docs/configuration.md
@@ -8,9 +8,9 @@ A lot of code in prism's repository is templated from a single configuration fil
 * `include/prism/node_new.h` - for defining the functions that create the nodes in C
 * `javascript/src/deserialize.js` - for defining how to deserialize the nodes in JavaScript
 * `javascript/src/nodes.js` - for defining the nodes in JavaScript
-* `java/api/target/generated-sources/java/org/ruby_lang/prism/AbstractNodeVisitor.java` - for defining the visitor interface for the nodes in Java
-* `java/api/target/generated-sources/java/org/ruby_lang/prism/Loader.java` - for defining how to deserialize the nodes in Java
-* `java/api/target/generated-sources/java/org/ruby_lang/prism/Nodes.java` - for defining the nodes in Java
+* `java/api/src/main/java-templates/org/ruby_lang/prism/AbstractNodeVisitor.java` - for defining the visitor interface for the nodes in Java
+* `java/api/src/main/java-templates/org/ruby_lang/prism/Loader.java` - for defining how to deserialize the nodes in Java
+* `java/api/src/main/java-templates/org/ruby_lang/prism/Nodes.java` - for defining the nodes in Java
 * `lib/prism/compiler.rb` - for defining the compiler for the nodes in Ruby
 * `lib/prism/dispatcher.rb` - for defining the dispatch visitors for the nodes in Ruby
 * `lib/prism/dot_visitor.rb` - for defining the dot visitor for the nodes in Ruby
diff --git a/java/.gitignore b/java/.gitignore
index a88111250b..e61251f358 100644
--- a/java/.gitignore
+++ b/java/.gitignore
@@ -1,4 +1,7 @@
+api/src/main/java-templates
 api/target
 native/target
+wasm/src/main/wasm
 wasm/target
+target
 .idea
diff --git a/java/README.md b/java/README.md
index 6380850e00..0dd4215777 100644
--- a/java/README.md
+++ b/java/README.md
@@ -18,7 +18,7 @@ Sources under `api` are generated from templates in `../templates`. Those source
 $ PRISM_EXCLUDE_PRETTYPRINT=1 PRISM_SERIALIZE_ONLY_SEMANTICS_FIELDS=1 bundle exec rake templates
 ```
 
-The files go under `api/target/generated-sources/java` and will be removed with `mvn clean`.
+The files are generated under `api/src/main/java-templates` and will not be removed with `mvn clean`.
 
 ### WASM build of Prism
 
@@ -28,7 +28,7 @@ The `wasm` project needs a WASM build of Prism to be generated with the followin
 $ make java-wasm WASI_SDK_PATH=<path to WASI sdk>
 ```
 
-The files go under `wasm/target/generated-sources/wasm` and will be removed with `mvn clean`.
+The build is generated under `wasm/src/main/wasm` and will not be removed with `mvn clean`.
 
 ### Build and install
 
diff --git a/java/api/pom.xml b/java/api/pom.xml
index 043173366c..396fa33161 100644
--- a/java/api/pom.xml
+++ b/java/api/pom.xml
@@ -27,7 +27,7 @@
             </goals>
             <configuration>
               <sources>
-                <source>target/generated-sources/java</source>
+                <source>src/main/java-templates</source>
               </sources>
             </configuration>
           </execution>
diff --git a/java/native/src/main/java/org/ruby_lang/prism/Parser.java b/java/native/src/main/java/org/ruby_lang/prism/jni/Parser.java
similarity index 91%
rename from java/native/src/main/java/org/ruby_lang/prism/Parser.java
rename to java/native/src/main/java/org/ruby_lang/prism/jni/Parser.java
index 5c60977d80..49d8d731a8 100644
--- a/java/native/src/main/java/org/ruby_lang/prism/Parser.java
+++ b/java/native/src/main/java/org/ruby_lang/prism/jni/Parser.java
@@ -1,4 +1,4 @@
-package org.ruby_lang.prism;
+package org.ruby_lang.prism.jni;
 
 public abstract class Parser {
 
diff --git a/java/wasm/pom.xml b/java/wasm/pom.xml
index d652780606..3ec7525bb2 100644
--- a/java/wasm/pom.xml
+++ b/java/wasm/pom.xml
@@ -115,7 +115,7 @@
             </goals>
             <configuration>
               <name>org.ruby_lang.prism.wasm.PrismParser</name>
-              <wasmFile>src/test/resources/prism.wasm</wasmFile>
+              <wasmFile>src/main/wasm/prism.wasm</wasmFile>
             </configuration>
           </execution>
         </executions>
diff --git a/java/wasm/src/main/java-templates/org/ruby_lang/prism/wasm/WasmResource.java b/java/wasm/src/main/java-templates/org/ruby_lang/prism/wasm/WasmResource.java
index 785c2bd916..d52466e2a9 100644
--- a/java/wasm/src/main/java-templates/org/ruby_lang/prism/wasm/WasmResource.java
+++ b/java/wasm/src/main/java-templates/org/ruby_lang/prism/wasm/WasmResource.java
@@ -1,7 +1,7 @@
 package org.ruby_lang.prism.wasm;
 
 public final class WasmResource {
-    public static final String absoluteFile = "file://${project.basedir}/src/test/resources/prism.wasm";
+    public static final String absoluteFile = "file://${project.basedir}/src/main/wasm/prism.wasm";
 
     private WasmResource() {}
 }
diff --git a/java/wasm/src/test/resources/.gitignore b/java/wasm/src/test/resources/.gitignore
deleted file mode 100644
index 602a758338..0000000000
--- a/java/wasm/src/test/resources/.gitignore
+++ /dev/null
@@ -1 +0,0 @@
-prism.wasm
diff --git a/templates/java/api/target/generated-sources/java/org/ruby_lang/prism/AbstractNodeVisitor.java.erb b/templates/java/api/src/main/java-templates/org/ruby_lang/prism/AbstractNodeVisitor.java.erb
similarity index 100%
rename from templates/java/api/target/generated-sources/java/org/ruby_lang/prism/AbstractNodeVisitor.java.erb
rename to templates/java/api/src/main/java-templates/org/ruby_lang/prism/AbstractNodeVisitor.java.erb
diff --git a/templates/java/api/target/generated-sources/java/org/ruby_lang/prism/Loader.java.erb b/templates/java/api/src/main/java-templates/org/ruby_lang/prism/Loader.java.erb
similarity index 100%
rename from templates/java/api/target/generated-sources/java/org/ruby_lang/prism/Loader.java.erb
rename to templates/java/api/src/main/java-templates/org/ruby_lang/prism/Loader.java.erb
diff --git a/templates/java/api/target/generated-sources/java/org/ruby_lang/prism/Nodes.java.erb b/templates/java/api/src/main/java-templates/org/ruby_lang/prism/Nodes.java.erb
similarity index 100%
rename from templates/java/api/target/generated-sources/java/org/ruby_lang/prism/Nodes.java.erb
rename to templates/java/api/src/main/java-templates/org/ruby_lang/prism/Nodes.java.erb
diff --git a/templates/template.rb b/templates/template.rb
index 34c1afb0c6..7638c9c058 100755
--- a/templates/template.rb
+++ b/templates/template.rb
@@ -684,9 +684,9 @@ def locals
       "javascript/src/deserialize.js",
       "javascript/src/nodes.js",
       "javascript/src/visitor.js",
-      "java/api/target/generated-sources/java/org/ruby_lang/prism/Loader.java",
-      "java/api/target/generated-sources/java/org/ruby_lang/prism/Nodes.java",
-      "java/api/target/generated-sources/java/org/ruby_lang/prism/AbstractNodeVisitor.java",
+      "java/api/src/main/java-templates/org/ruby_lang/prism/Loader.java",
+      "java/api/src/main/java-templates/org/ruby_lang/prism/Nodes.java",
+      "java/api/src/main/java-templates/org/ruby_lang/prism/AbstractNodeVisitor.java",
       "lib/prism/compiler.rb",
       "lib/prism/dispatcher.rb",
       "lib/prism/dot_visitor.rb",