For research use only. Not for use in diagnostic procedures. Answer
On Windows 7 ( and particularly with Internet Explorer > 8), the Mascot script does not populate file name automatically. Users will need to select the file name manually using the Browse button.
When sending all spectra, the script works with data acquired using two distinct types of acquisition methods: either a multiple period / multiple experiment method containing any number of product experiments or an IDA (Information Dependent Acquisition) method.
Analyst 1.6.x Release Notes have defects regarding Mascot listed:
Mascot script fails to run for single EPI spectra
The Mascot script fails to run for single EPI spectra or for summed EPI spectra acquired with MCA turned on. On the Explore menu, click Show TIC, highlight the entire TIC or highlight a small region around the peak of interest and then run the Mascot script. By default, the search option All MS/MS spectra from selected region(s) in TIC is selected. This option will run correctly.