@Nick: Your problem has nothing to do with the parenthesis in filename.
This is an issue with make 3.82

Your problem results from a unix like shell somewhere in your path. This is 
already covered by the FAQ: 
http://wiki.panotools.org/Hugin_FAQ#Stitching_fails_on_Windows_.28syntax_error.29
There are already several bug reports concerning your problem:
https://bugs.launchpad.net/hugin/+bug/696646
https://bugs.launchpad.net/hugin/+bug/727406
This bug is already fixed in the upcoming version.

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https://bugs.launchpad.net/bugs/709361

Title:
  Panorama stitching fails if path contains parentheses

Status in Hugin - Panorama Tools GUI:
  New

Bug description:
  Sorry if this has already been reported, but I couldn't find it in the
  list of bugs or the FAQ.

  The new Hugin is a huge improvement overall, but if I try stitching a
  panorama whose files are in a location whose path contains an open-
  parenthesis character, the stitching fails. Here is the error log
  generated:

  ===========================================================================
  ***************  Panorama makefile generated by Hugin       ***************
  ===========================================================================
  System information
  ===========================================================================
  Operating System: Windows 7 (6.1 )
  Architecture: x86
  Number of logical processors: 8
  Physical memory: 12581304 kiB (38% occupied)
  Free space on disc: 894195 MiB
  Active codepage: 1252 (Western European Windows)
  ===========================================================================
  Output options
  ===========================================================================
  Hugin Version: 2010.4.0.854952d82c8f built by Matthew Petroff
  Project file: C:\Users\blincoln\AppData\Local\Temp\hug18BE.tmp
  Output prefix: Panorama
  Projection: Equirectangular (2)
  Field of view: 98 x 66
  Canvas dimensions: 4140 x 2788
  Crop area: (0,0) - (4140,2788)
  Output exposure value: 5.00
  Selected outputs
  Normal panorama
  * Blended panorama
  ===========================================================================
  Input images
  ===========================================================================
  Number of images in project file: 4
  Number of active images: 4
  Image 0: V:\Drive 2010 Photos\Day_11-2010-07-15\08-Apollo (14QM) Module 
Panorama\DSC_9982.TIF
  Image 0: Size 3008x2000, Exposure: 5.00
  Image 1: V:\Drive 2010 Photos\Day_11-2010-07-15\08-Apollo (14QM) Module 
Panorama\DSC_9983.TIF
  Image 1: Size 3008x2000, Exposure: 5.00
  Image 2: V:\Drive 2010 Photos\Day_11-2010-07-15\08-Apollo (14QM) Module 
Panorama\DSC_9984.TIF
  Image 2: Size 3008x2000, Exposure: 5.00
  Image 3: V:\Drive 2010 Photos\Day_11-2010-07-15\08-Apollo (14QM) Module 
Panorama\DSC_9985.TIF
  Image 3: Size 3008x2000, Exposure: 5.00
  ===========================================================================
  Testing programs
  ===========================================================================
  Checking nona...
  nona is ok 
  Checking enblend...
  enblend is ok 
  Checking enfuse...
  enfuse is ok 
  Checking hugin_hdrmerge...
  hugin_hdrmerge is ok 
  Checking exiftool...
  exiftool is ok 
  ===========================================================================
  Stitching panorama
  ===========================================================================
  make: *** No rule to make target `14QM) Module Panorama/DSC_9982.TIF)', 
needed by `Panorama0000.tif'.  Stop.

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