Issue 1:
[Enter steps to reproduce below:]

...

...

Atom Version: 0.204.0

System: Mac OS X 10.10.3

Thrown From: Atom Core

Stack Trace

Uncaught Error: Encountered an invalid scope end id. Popped -3, expected to pop -95.

At /Applications/Atom.app/Contents/Resources/app.asar/node_modules/text-buffer/lib/text-buffer.js:755

Error: Encountered an invalid scope end id. Popped -3, expected to pop -95.
at TokenizedBuffer.module.exports.TokenizedBuffer.scopesFromTags (/Applications/Atom.app/Contents/Resources/app.asar/src/tokenized-buffer.js:573:21)
at TokenizedBuffer.module.exports.TokenizedBuffer.openScopesForRow (/Applications/Atom.app/Contents/Resources/app.asar/src/tokenized-buffer.js:555:21)
at TokenizedBuffer.module.exports.TokenizedBuffer.handleBufferChange (/Applications/Atom.app/Contents/Resources/app.asar/src/tokenized-buffer.js:369:113)
at /Applications/Atom.app/Contents/Resources/app.asar/src/tokenized-buffer.js:62:24
at Emitter.module.exports.Emitter.emit (/Applications/Atom.app/Contents/Resources/app.asar/node_modules/event-kit/lib/emitter.js:82:11)
at TextBuffer.module.exports.TextBuffer.applyChange (/Applications/Atom.app/Contents/Resources/app.asar/node_modules/text-buffer/lib/text-buffer.js:624:20)
at TextBuffer.module.exports.TextBuffer.revertToCheckpoint (/Applications/Atom.app/Contents/Resources/app.asar/node_modules/text-buffer/lib/text-buffer.js:789:16)
at TextBuffer.module.exports.TextBuffer.transact (/Applications/Atom.app/Contents/Resources/app.asar/node_modules/text-buffer/lib/text-buffer.js:753:14)
at TextEditor.module.exports.TextEditor.transact (/Applications/Atom.app/Contents/Resources/app.asar/src/text-editor.js:1136:26)
at TextEditor.module.exports.TextEditor.moveLineUp (/Applications/Atom.app/Contents/Resources/app.asar/src/text-editor.js:793:19)

Commands

-1:26.3.0 core:move-right (atom-text-editor.editor.is-focused)
2x -1:24.4.0 core:move-down (atom-text-editor.editor.is-focused)
2x -1:22.4.0 core:select-up (atom-text-editor.editor.is-focused)
-1:20.7.0 core:move-up (atom-text-editor.editor.is-focused)
-1:20 core:move-right (atom-text-editor.editor.is-focused)
-1:19.5.0 core:move-down (atom-text-editor.editor.is-focused)
-1:19.1.0 core:move-right (atom-text-editor.editor.is-focused)
-1:18.3.0 editor:newline (atom-text-editor.editor.is-focused)
-1:11.5.0 core:backspace (atom-text-editor.editor.is-focused.autocomplete-active)
-1:07.3.0 editor:newline (atom-text-editor.editor.is-focused.autocomplete-active)
3x -0:53.3.0 core:backspace (atom-text-editor.editor.is-focused.autocomplete-active)
-0:46.6.0 core:save (atom-text-editor.editor.is-focused)
-0:14.1.0 editor:newline (atom-text-editor.editor.is-focused)
-0:12.1.0 core:paste (atom-text-editor.editor.is-focused.autocomplete-active)
-0:10.4.0 editor:newline (atom-text-editor.editor.is-focused)
3x -0:02.7.0 editor:move-line-up (atom-text-editor.editor.is-focused)

Config

{
"core": {
"themes": [
"one-dark-ui",
"one-dark-syntax"
],
"disabledPackages": [
"atom-color-highlight"
]
},
"editor": {
"invisibles": {},
"fontSize": 11,
"showIndentGuide": true,
"showInvisibles": true
}
}

Installed Packages

# User
Sublime-Style-Column-Selection, v1.3.0
atom-yamljson, v0.2.3
autocomplete-paths, v1.0.2
color-picker, v1.6.0
local-server-express, v0.3.1
show-ideographic-space, v0.1.7

# Dev
No dev packages

Issue 2:
[Enter steps to reproduce below:]

I opened it week after I wrote this, and its crashing when I set syntax highlight to shell

file ist just a awk+shell

Atom Version: 0.204.0

System: Mac OS X 10.10.2

Thrown From: Atom Core

Stack Trace

Uncaught Error: Encountered an invalid scope end id. Popped -27, expected to pop -45.

At /Applications/Atom.app/Contents/Resources/app.asar/src/tokenized-buffer.js:573

Error: Encountered an invalid scope end id. Popped -27, expected to pop -45.
at TokenizedBuffer.module.exports.TokenizedBuffer.scopesFromTags (/Applications/Atom.app/Contents/Resources/app.asar/src/tokenized-buffer.js:573:21)
at TokenizedBuffer.module.exports.TokenizedBuffer.openScopesForRow (/Applications/Atom.app/Contents/Resources/app.asar/src/tokenized-buffer.js:555:21)
at TokenizedBuffer.module.exports.TokenizedBuffer.tokenizeNextChunk (/Applications/Atom.app/Contents/Resources/app.asar/src/tokenized-buffer.js:286:105)
at /Applications/Atom.app/Contents/Resources/app.asar/src/tokenized-buffer.js:263:26
at /Applications/Atom.app/Contents/Resources/app.asar/node_modules/underscore-plus/node_modules/underscore/underscore.js:666:47

Commands

3x -0:22.4.0 core:backspace (atom-text-editor.editor.mini.is-focused)
-0:04.2.0 application:open (atom-text-editor.editor.mini.is-focused)

Config

{
"core": {},
"editor": {
"fontSize": 13,
"invisibles": {}
}
}

Installed Packages

# User
color-picker, v2.0.2
ide-haskell, v0.5.6
language-glsl, v2.0.0
language-haskell, v1.0.0

# Dev
No dev packages