Agent can't work with Mutli-Maven-project setup in IntelliJ

[alshain]

Before submitting your bug report

• I've tried using the "Ask AI" feature on the Continue docs site to see if the docs have an answer
• I'm not able to find a related conversation on GitHub discussions that reports the same bug
• I'm not able to find an open issue that reports the same bug
• I've seen the troubleshooting guide on the Continue Docs

Relevant environment info

- OS: Win11
- Continue version: 1.0.59
- IDE version: IntelliJ 2025.3.2

Description

Using IntelliJ and multiple Maven projects, we have the following setup:

projects
- unrelated_projects
- related-project1 (Contains .idea folder)
- related-project2
- related-project3
- related-project4

We open related-project1 in IntelliJ. Then we add more Maven projects using Maven --> Add Maven Projects: related-project2 and related-project3, related-project4.

The agent seems unable to access files in the proper project folder. Working on files in project2, it apparently tries to resolve paths against project3.

For example:
I instructed the agent to create a file next to a file in project2. The file was created in project3.
Then I ask the agent what files are next to @Current File (project 2), it lists the file it just created in project3 instead of files in project 2.

To reproduce

No response

Log output

"function": {
                "name": "ls",
                "arguments": "{\"dirPath\":\"app/src/main/kotlin/com/example/proejct2\"}"
              }

Looking at IntelliJ's misc.xml files which keeps track of the loaded Maven projects, I notice that project3 is listed last:

  <component name="MavenProjectsManager">
    <option name="originalFiles">
      <list>
        <option value="$PROJECT_DIR$/pom.xml" />
        <option value="$PROJECT_DIR$/../related-project2/pom.xml" />
        <option value="$PROJECT_DIR$/../related-project4/pom.xml" />
        <option value="$PROJECT_DIR$/../related-project3/pom.xml" />
      </list>
    </option>
  </component>

[alshain]

As you can see from the arguments when calling tools, it uses a relative path and most likely isn't able to deal with multiple roots.