updater.log

[01/02/2016:09:05:24:534:log:05133]  Checking validity.
[01/02/2016:09:05:24:560:log:05133]  dependency check: [ { name: 'angular',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/angular',
    current: '1.4.9',
    desired: '^1.4.8',
    valid: true },
  { name: 'angular-elastic',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/angular-elastic',
    current: '2.5.1',
    desired: '^2.5.1',
    valid: true },
  { name: 'angular-highlightjs',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/angular-highlightjs',
    current: '0.5.1',
    desired: '^0.5.1',
    valid: true },
  { name: 'angular-hotkeys',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/angular-hotkeys',
    current: '1.6.0',
    desired: '^1.6.0',
    valid: true },
  { name: 'angular-loading-bar',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/angular-loading-bar',
    current: '0.8.0',
    desired: '^0.8.0',
    valid: true },
  { name: 'angular-local-storage',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/angular-local-storage',
    current: '0.2.2',
    desired: '^0.2.2',
    valid: true },
  { name: 'angular-moment',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/angular-moment',
    current: '1.0.0-beta.3',
    desired: '1.0.0-beta.3',
    valid: true },
  { name: 'angular-sanitize',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/angular-sanitize',
    current: '1.4.9',
    desired: '^1.4.5',
    valid: true },
  { name: 'angular-ui-bootstrap',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/angular-ui-bootstrap',
    current: '1.1.1',
    desired: '^1.1.0',
    valid: true },
  { name: 'angular-ui-router',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/angular-ui-router',
    current: '0.2.17',
    desired: '^0.2.15',
    valid: true },
  { name: 'angular-ui-sortable',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/angular-ui-sortable',
    current: '0.13.4',
    desired: '^0.13.4',
    valid: true },
  { name: 'babel',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/babel',
    current: '6.3.26',
    desired: '^6.3.26',
    valid: true },
  { name: 'babel-preset-es2015',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/babel-preset-es2015',
    current: '6.3.13',
    desired: '^6.3.13',
    valid: true },
  { name: 'electron-plugins',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/electron-plugins',
    current: '0.0.4',
    desired: '0.0.4',
    valid: true },
  { name: 'electron-updater',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/electron-updater',
    current: '0.3.0',
    desired: 'github:vj3k0/electron-updater',
    valid: false },
  { name: 'highlight.js',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/highlight.js',
    current: '9.1.0',
    desired: '^9.1.0',
    valid: true },
  { name: 'image-size',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/image-size',
    current: '0.4.0',
    desired: '^0.4.0',
    valid: true },
  { name: 'jquery',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/jquery',
    current: '2.2.0',
    desired: '^2.2.0',
    valid: true },
  { name: 'lodash',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/lodash',
    current: '4.1.0',
    desired: '^4.0.0',
    valid: true } ]
[01/02/2016:09:05:24:560:log:05133]  Dependencies are not valid.
[01/02/2016:09:05:24:561:log:05133]  execPath:/Applications/CodeSketcher (Alpha).app/Contents/MacOS/Electron
[01/02/2016:09:05:24:561:log:05133]  copy appDir: /Applications/CodeSketcher (Alpha).app
[01/02/2016:09:05:24:561:log:05133]    updateDir: /Users/michaelcalkins/Library/Application Support/CodeSketcher/updater/0.36.7
[01/02/2016:09:05:25:186:log:05133]  Launching update process: 
[01/02/2016:09:05:25:186:log:05133]    args: '{"appName":"CodeSketcher","publisher":"CodeSketcher","cwd":"/","exe":"/Applications/CodeSketcher (Alpha).app/Contents/MacOS/Electron","argv":[]}'
[01/02/2016:09:05:25:186:log:05133]    exe: /Users/michaelcalkins/Library/Application Support/CodeSketcher/updater/0.36.7/Contents/MacOS/Electron
[01/02/2016:09:05:25:186:log:05133]    cwd:  /Applications/CodeSketcher (Alpha).app/Contents/Resources/app
[01/02/2016:09:05:25:186:log:05133]    updateDir: /Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/electron-updater
 

Your problem appears to be this:

{ name: 'electron-updater',
    dir: '/Applications/CodeSketcher (Alpha).app/Contents/Resources/app/node_modules/electron-updater',
    current: '0.3.0',
    desired: 'github:vj3k0/electron-updater',
    valid: false },

Which tells me that in your package.json your dependency is probably:

"dependencies": {
  ...
  "electron-updater": "github:vj3k0/electron-updater"
}

Npm probably understands this but the electron-udpater doesn't. It could probably, but it doesn't have that feature yet. Thus when it updates it is asking npm for versions and it is then is treating that like a valid semver (which it isn't) and therefore fails to update. Then since the app is only partially updated it ends up trying to keep udpating, but fails.