Dominic, thank you for a boiler-plate instructions, I did many, if not all, of those before posting.
However, the story deepens, it sems that the culprit is one of the system updates, since this happened to me on a different machine, too. At least, culprit would be the part of one of the updates that may have written to/changed permissions of the ScriptingAdditions folder. Or, the sandbox settings may have been corrupted, who knows, I don't.
Here's the detailed report that was being generated in Console log ***repetitively***:
PluginProcess(25190) deny file-read-data /Users/[user]/Library/ScriptingAdditions
Process: PluginProcess [25190]
Path: /System/Library/StagedFrameworks/Safari/WebKit2.framework/PluginProcess.app/Con tents/MacOS/PluginProcess
Load Address: 0x109d5f000
Identifier: PluginProcess
Version: ??? (???)
Code Type: X86-64 (Native)
Parent Process: Safari [24555]
Date/Time: 2014-01-23 17:40:14.783 -0600
OS Version: Mac OS X 10.7.5 (11G63)
Report Version: 7
Backtrace:
0 libsystem_kernel.dylib 0x00007fff8c1c5afa __open_nocancel + 10
1 libsystem_c.dylib 0x00007fff8c05d033 __opendir2$INODE64 + 51
2 CarbonCore 0x00007fff8dc71d71 FSMount::getIndexedDirectoryItem(unsigned int, unsigned int, unsigned int, char*, unsigned char*) + 283
3 CarbonCore 0x00007fff8dc25f9e PBGetCatalogInfoBulkSync + 941
4 CarbonCore 0x00007fff8dc25bd4 FSGetCatalogInfoBulk + 66
5 OpenScripting 0x00007fff8e0933f4 _ZL13IterateFolderPK5FSRefP6AEDescsbb + 209
6 OpenScripting 0x00007fff8e093cc6 _ZL13LoadAdditionsP6AEDesc + 502
7 OpenScripting 0x00007fff8e0943a0 HandleGDUT(AEDesc const*, AEDesc*, void*) + 260
8 AE 0x00007fff911a5c25 aeDispatchAppleEvent(AEDesc const*, AEDesc*, unsigned int, unsigned char*) + 200
9 AE 0x00007fff911a5b03 _ZL25dispatchEventAndSendReplyPK6AEDescPS_ + 38
10 AE 0x00007fff911a59f7 aeProcessAppleEvent + 250
11 HIToolbox 0x00007fff8bb52b69 AEProcessAppleEvent + 102
12 AppKit 0x00007fff894929c5 _DPSNextEvent + 1247
13 AppKit 0x00007fff8949207d -[NSApplication nextEventMatchingMask:untilDate:inMode:dequeue:] + 135
14 AppKit 0x00007fff8948e9b9 -[NSApplication run] + 470
15 WebKit2 0x0000000109f8e14f int WebKit::ChildProcessMain<WebKit::PluginProcess, WebKit::PluginProcessMainDelegate>(int, char**) + 645
16 PluginProcess 0x0000000109d60b7f
17 PluginProcess 0x0000000109d60a78
Binary Images:
0x109d5f000 - 0x109d61fff com.apple.WebKit.PluginProcess (7537 - 7537.73.11) <94FB3F7B-A0D6-34F0-957C-FE7DF08C9FE3> /System/Library/StagedFrameworks/Safari/WebKit2.framework/PluginProcess.app/Con tents/MacOS/PluginProcess
0x109f00000 - 0x10a168fff com.apple.WebKit2 (7537 - 7537.73.11) <ADBE17E6-F45E-340B-9172-09C9E25389E9> /System/Library/StagedFrameworks/Safari/WebKit2.framework/WebKit2
0x7fff8948a000 - 0x7fff8a090fff com.apple.AppKit (6.7.5 - 1138.51) <44417D02-6123-3FC3-A119-CE51BB4C3006> /System/Library/Frameworks/AppKit.framework/Versions/C/AppKit
0x7fff8bb42000 - 0x7fff8be6efff com.apple.HIToolbox (1.9 - ???) <CCB32DEA-D0CA-35D1-8019-E599C8007AB6> /System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/HIToolbox.fra mework/Versions/A/HIToolbox
0x7fff8c002000 - 0x7fff8c0dffef libsystem_c.dylib (763.13.0 - compatibility 1.0.0) <41B43515-2806-3FBC-ACF1-A16F35B7E290> /usr/lib/system/libsystem_c.dylib
0x7fff8c1af000 - 0x7fff8c1cffff libsystem_kernel.dylib (1699.32.7 - compatibility 1.0.0) <66C9F9BD-C7B3-30D4-B1A0-03C8A6392351> /usr/lib/system/libsystem_kernel.dylib
0x7fff8dc08000 - 0x7fff8df24fff com.apple.CoreServices.CarbonCore (960.25 - 960.25) <4FC1AB30-022C-3C67-AC46-FDCBFCB7EEDE> /System/Library/Frameworks/CoreServices.framework/Versions/A/Frameworks/CarbonC ore.framework/Versions/A/CarbonCore
0x7fff8e081000 - 0x7fff8e09eff7 com.apple.openscripting (1.3.3 - ???) <F5E34F54-CE85-334B-8F25-53581D43960C> /System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/OpenScripting .framework/Versions/A/OpenScripting
0x7fff911a2000 - 0x7fff911e1fff com.apple.AE (527.7 - 527.7) <B82F7ABC-AC8B-3507-B029-969DD5CA813D> /System/Library/Frameworks/CoreServices.framework/Versions/A/Frameworks/AE.fram ework/Versions/A/AE
(I blanked out my user name.)