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Military:
USAF F-111, near King's Seat, Fife, 1972:
http://www.raf-upper-heyford.org/Mishaps.html
http://www.f-111.net/t_no_E.htm
USAF F-111 on Sgurr na Stri, Skye, 1982:
http://www.isbuc.co.uk/People/F-111Crew.htm
RAF SAR Wessex on Ben More, 1987:
http://www.incallander.co.uk/rescue.htm
http://mysite.orange.co.uk/aircraftwreckage/wessex.htm
RAF SAR Sea King on Creag Meagaidh, 1989:
http://mysite.orange.co.uk/aircraftwreckage/seaking.htm
RAF Hercules at Glen Loch near Beinn a'Ghlo, 1993:
http://aviation-safety.net/database/record.php?id=19930527-0&lang=en
http://www.baaa-acro.com/photos/C130-RAF-Blair%20Athol.jpg
http://mysite.orange.co.uk/aircraftwreckage/hercules.htm
RAF Chinook, Mull of Kintyre, 1994 (not a mountainous area, but included here for completeness as this was a very high-profile crash):
http://en.wikipedia.org/wiki/Chinook_crash_on_Mull_of_Kintyre
RAF Tornado in Glen Ogle, 1994:
http://www.robroyway.fsnet.co.uk/interest.html#chapter9
http://mysite.orange.co.uk/aircraftwreckage/tornado.htm
RAF Jaguar, Lochmaben, 2000:
http://news.bbc.co.uk/1/hi/scotland/1693469.stm
http://mysite.orange.co.uk/aircraftwreckage/jaguar.htm
Two USAF F15s on Ben Macdui, 2001:
http://news.bbc.co.uk/1/hi/scotland/4686602.stm
http://mysite.orange.co.uk/aircraftwreckage/eagle.htm
RAF SAR Sea King stranded at Coire an t-Sneachda, Cairngorms, 2006 (not strictly a crash!):
http://news.bbc.co.uk/1/hi/scotland/highlands_and_islands/6332159.stm

Civilian:
Vickers Viscount crash on Ben More (Crianlarich), 1973:
http://www.aircrashsites-scotland.co.uk/vickers_viscount_g-.htm
http://aviation-safety.net/database/record.php?id=19730119-2
Light plane crash on Mullach an Rathain, Torridon, 2000:
http://news.bbc.co.uk/1/hi/scotland/1187972.stm
http://news.bbc.co.uk/1/hi/scotland/1422974.stm
Light plane crash on Lochnagar 2001:
http://news.bbc.co.uk/1/hi/scotland/1137196.stm
http://news.bbc.co.uk/1/hi/scotland/1136774.stm
Light plane crash on Seana Bhraigh, 2004:
http://news.bbc.co.uk/1/hi/scotland/3946537.stm
Light plane crash on Mount Keen, 2005:
http://news.bbc.co.uk/1/hi/scotland/4141388.stm
Glider crash on Beinn a'Bhuird, 2006:
http://news.bbc.co.uk/1/hi/scotland/north_east/5167612.stm
Light plane crash near Loch Scammadale and Carn Dearg, 2007:
http://news.bbc.co.uk/1/hi/scotland/glasgow_and_west/6543373.stm
Light plane crash on Cairn Gorm, 2008:
http://news.bbc.co.uk/1/hi/scotland/highlands_and_islands/7332901.stm