I just got this problem when updating to 1.489.

It is happening to me also on 1.489.

Stack trace:
org.jvnet.hudson.reactor.ReactorException: java.lang.Error: java.lang.reflect.InvocationTargetException
at org.jvnet.hudson.reactor.Reactor.execute(Reactor.java:246)
at jenkins.InitReactorRunner.run(InitReactorRunner.java:43)
at jenkins.model.Jenkins.executeReactor(Jenkins.java:894)
at jenkins.model.Jenkins.<init>(Jenkins.java:796)
at hudson.model.Hudson.<init>(Hudson.java:81)
at hudson.model.Hudson.<init>(Hudson.java:77)
at hudson.WebAppMain$2.run(WebAppMain.java:214)
Caused by: java.lang.Error: java.lang.reflect.InvocationTargetException
at hudson.init.InitializerFinder.invoke(InitializerFinder.java:124)
at hudson.init.InitializerFinder$TaskImpl.run(InitializerFinder.java:184)
at org.jvnet.hudson.reactor.Reactor.runTask(Reactor.java:259)
at jenkins.model.Jenkins$7.runTask(Jenkins.java:883)
at org.jvnet.hudson.reactor.Reactor$2.run(Reactor.java:187)
at org.jvnet.hudson.reactor.Reactor$Node.run(Reactor.java:94)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1110)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:603)
at java.lang.Thread.run(Thread.java:722)
Caused by: java.lang.reflect.InvocationTargetException
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:601)
at hudson.init.InitializerFinder.invoke(InitializerFinder.java:120)
... 8 more
Caused by: java.lang.NullPointerException
at hudson.plugins.git.GitTool.onLoaded(GitTool.java:74)
... 13 more

Installed plugins:
LDAP Plugin
pam-auth
ant
javadoc
Jenkins Subversion Plug-in
Jenkins jQuery plugin
Jenkins jQuery UI plugin
Nested View Plugin
Jenkins Multijob plugin
Token Macro Plugin
Jenkins SSH Slaves plugin
Python Plugin
Jenkins CVS Plug-in
Maven Integration plugin
Copy Artifact Plugin
Log Parser Plugin
ChuckNorris Plugin
Jenkins Translation Assistance plugin
Green Balls
Jenkins Parameterized Trigger plugin

I've the same error with Jenkins 1.488 after an update of this four plugins :

• CVS Plugin
• Active Directory plugin
• Scriptler Plugin
• Translation Assistance Plugin

deleted-After, rollback one by one each of this plugin, the bug seems to related with the CVS plugin (version 2.7)-deleted
-> This error is not related with the Git Plugin.

Michael, I tried your suggestion and downgraded the CVS plugin to 2.6 and it still happens. Also tried downgrading the SVN plugin also just in case.

I'm trying to install the Dynamic Parameter plugin which requires and installs the git and the scriptlr plugins, maybe one of them is the cause?

It's possibly the Scriptlr plugin which cause this issue. I thought it was not related as it was not in your list.

Effectively, this is the Scriptlet plugin that cause this issue. I just install it and the problem reappeared.

Thanks Michael, I manually installed scriptler 2.4.1 and it solved the issue.

It seems that installing the new dependency "Git Server Plugin" fixes this issue along with "FileBackedHttpGitRepository" exception.

Please have a go with the newest version 2.5.1 and let me know if it fixes the issues for you.
The plugin git-server is a required dependency now.

no reaction so far, please reopen if this is still an issue