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Just like jQuery, Mootools also has some nice lightbox clones available.
When compared with jQuery alternatives, one option I found to be missing is the ability to resize image according to the browser window.

You might also want to check the following post
Which is the best lightbox clone for jQuery
Milkbox

One thing I particularly liked in Milkbox is the ability to show slide shows. An interval can be specified.
DEPENDENCIES | Mootools |
---|---|
SIZE | Less than 22KB (Uncompressed) |
GROUPING OF IMAGES | Supported |
KEYBOARD NAVIGATION | Supported (Arrow keys & Esc) |
TRANSITION EFFECTS | Yes |
DESCRIPTION FOR IMAGES | Supported |
SLIDE SHOW MODE | Supported |
IMAGE RESIZE | No |
DESCRIPTION FOR IMAGES | Supported |
SUPPORTED BROWSERS | Firefox 2+3, IE6+7, Safari 3, Opera 9.5 |
RESTRICTIONS | No |
DEMO & DOWNLOAD | Open | Open in new window |
Slimbox

It is a very lightweight script – just around 4KB.
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DEPENDENCIES | Mootools |
---|---|
SIZE | 4KB |
GROUPING OF IMAGES | Supported |
KEYBOARD NAVIGATION | Supported (Arrow keys & Esc) |
TRANSITION EFFECTS | Yes |
DESCRIPTION FOR IMAGES | Supported |
SLIDE SHOW MODE | No |
IMAGE RESIZE | No |
SUPPORTED BROWSERS | Firefox 2+3, IE6+7, Safari 3, Opera 9.5 |
RESTRICTIONS | No |
DEMO | Open | Open in new window |
INFO & DOWNLOAD | Open |
Lightbox by phatfusion

One interesting feature is the ability to specify the DIV element that should contain the background (The background layer). So the effects can be either applied to the whole body or to a particular DIV element.
DEPENDENCIES | Mootools |
---|---|
SIZE | 10KB |
GROUPING OF IMAGES | Supported |
KEYBOARD NAVIGATION | Supported (Arrow keys & Esc) |
TRANSITION EFFECTS | Yes |
DESCRIPTION FOR IMAGES | Supported |
SLIDE SHOW MODE | No |
IMAGE RESIZE | No |
SUPPORTED BROWSERS | Firefox 2+3, IE6+7, Safari 3, Opera 9.5 |
RESTRICTIONS | No |
DEMO & DOWNLOAD | Open | Open in new window |