auto save

The complied file (with changes made) is not auto saved (even though selected). Also after changes are made, and save or save as is selected, the changes are not saved to the HD. Can exit beta 2.0 and re-load, and the original file is loaded without the changes that were made.

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It sounds like this bug:

which has been fixed. @VictorBramhall please give the latest version of Arduino IDE 2.x (2.0.0-beta.12 currently) a try and let us know whether you still experience the problem you reported. Thanks!