According the documentation is is possible to turn off the functionality just doing $(\'body\').off(\'.alert.data-api\'). In the case of tooltip I tried the
$(\'body\').off(\'.alert.data-api\')
Can you try:
$('a[rel=tooltip]').tooltip(); $('a[rel=tooltip]').off('.tooltip');
Don't forget to change the selector. Works fine for me... http://jsfiddle.net/D9JTZ/