Java SE 6 runtime message error can be frustrating for Mac OSX Yosemite and El Capitan users when they try to run Java-based applications or programs.

Here are some steps you can follow:

1. Check if your system meets minimum requirements:

- Operating System: Mac OS X 10.8 (or later)

- Processor Architecture: x64

2. Remove existing versions of Java SE Runtime Environment and then download the latest version from Oracle's official website.

To remove previous installations on a Mac, follow these steps:

* Open Terminal

* Enter `sudo /Library/Java/UpdateAssistant.app/Contents/Resources/jre-1.6.0.ja_r.p*`

If prompted to enter your admin password, type it in.

3. After removing old versions and downloading the latest version from Oracle's website:

- Double-click on .pkg file (if you're using Yosemite or later) OR double click twice if nothing happens.

- Follow instructions until installation is complete.

4. Restart your computer once installed to ensure changes take effect.

If problems persist, try these additional troubleshooting steps:

1. Re-download the latest version from Oracle's website and re-install it manually by following step 3 above carefully.

2. Check for any conflicts with other software on your system using Activity Monitor (located in Applications/Utilities). Try quitting all applications except for Safari or another basic web browser before attempting to run Java-based programs again.

If none of these suggestions work, consider reinstalling Mac OS X itself as a last resort option since corrupted operating systems can sometimes cause such issues with third-party software like Java SE Runtime Environment.

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