diff --git a/CHANGELOG.md b/CHANGELOG.md
index 35ac8efc..7bb23e82 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -17,6 +17,10 @@ This project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.htm
 
 ## Unreleased
 
+### Fixed
+
+- Fixed zkProgramFile to support nested paths. [#690](https://github.com/o1-labs/zkapp-cli/pull/690)
+
 ## [0.21.5](https://github.com/o1-labs/zkapp-cli/compare/0.21.4...0.21.5) - 2024-06-06
 
 ### Changed
diff --git a/src/lib/deploy.js b/src/lib/deploy.js
index 75e03c19..11fdce9d 100644
--- a/src/lib/deploy.js
+++ b/src/lib/deploy.js
@@ -792,8 +792,19 @@ async function findZkProgramFile(buildPath, zkProgramNameArg) {
       // eslint-disable-next-line no-unused-vars
       const [_, zkProgramVarName, nameArg] = match;
 
+      const buildSrcPath = buildPath.replace('**/*.js', 'src');
+      const relativePath = path.relative(buildSrcPath, file);
+
+      const isNested =
+        !relativePath.startsWith('..') && !path.isAbsolute(relativePath);
+
+      const zkProgramFile = isNested ? relativePath : path.basename(file);
+
       if (nameArg === zkProgramNameArg) {
-        return { zkProgramVarName, zkProgramFile: path.basename(file) };
+        return {
+          zkProgramVarName,
+          zkProgramFile,
+        };
       }
     }
   }
diff --git a/src/lib/deploy.test.js b/src/lib/deploy.test.js
index 7f81054e..357a737b 100644
--- a/src/lib/deploy.test.js
+++ b/src/lib/deploy.test.js
@@ -61,6 +61,21 @@ jest.unstable_mockModule('node:path', () => ({
     resolve: jest.fn(),
     dirname: jest.fn(),
     sep: '/',
+    relative: jest.fn().mockImplementation((from, to) => {
+      const fromParts = from.split('/');
+      const toParts = to.split('/');
+
+      let commonLength = 0;
+      for (let i = 0; i < Math.min(fromParts.length, toParts.length); i++) {
+        if (fromParts[i] !== toParts[i]) break;
+        commonLength++;
+      }
+
+      const up = fromParts.slice(commonLength).map(() => '..');
+      const down = toParts.slice(commonLength);
+
+      return [...up, ...down].join('/') || '.';
+    }),
   },
 }));
 
@@ -1075,6 +1090,31 @@ describe('deploy.js', () => {
       );
     });
 
+    it('should return the ZkProgram when found in nested folders', async () => {
+      const projectRoot = '/some/path/';
+      const zkProgramNameArg = 'myZkProgram';
+      const zkProgramFile = 'proofs/file1.js';
+      const zkProgramMock = { name: 'myZkProgram' };
+      glob.mockResolvedValue(['/some/path/file1.js']);
+      fs.readFileSync.mockReturnValue(
+        `
+          const myVar = ZkProgram({
+            name: 'myZkProgram'
+          });
+        `
+      );
+      jest.spyOn(path, 'basename').mockReturnValue('proofs/file1.js');
+      dynamicImport.mockResolvedValue({ myVar: zkProgramMock });
+      const { getZkProgram } = await import('./deploy.js');
+
+      const result = await getZkProgram(projectRoot, zkProgramNameArg);
+
+      expect(result).toBe(zkProgramMock);
+      expect(dynamicImport).toHaveBeenCalledWith(
+        `${projectRoot}/build/src/${zkProgramFile}`
+      );
+    });
+
     it('should handle Windows paths correctly', async () => {
       const originalPlatform = process.platform;
       try {