Similar issue as issue #663, where an unexpected EOF causes startup to fail:

18:41:15 ERROR i.onedev.commons.bootstrap.Bootstrap - Error booting application
java.lang.RuntimeException: java.lang.reflect.InvocationTargetException
	at io.onedev.commons.loader.Listener.notify(Listener.java:21)
	at io.onedev.commons.loader.DefaultListenerRegistry.post(DefaultListenerRegistry.java:72)
	at io.onedev.server.OneDev.postStart(OneDev.java:142)
	at io.onedev.server.persistence.SessionInterceptor$1.call(SessionInterceptor.java:23)
	at io.onedev.server.persistence.DefaultSessionManager.call(DefaultSessionManager.java:85)
	at io.onedev.server.persistence.SessionInterceptor.invoke(SessionInterceptor.java:18)
	at io.onedev.commons.loader.DefaultPluginManager.start(DefaultPluginManager.java:48)
	at io.onedev.commons.loader.AppLoader.start(AppLoader.java:73)
	at io.onedev.commons.bootstrap.Bootstrap.main(Bootstrap.java:189)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:64)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:564)
	at org.tanukisoftware.wrapper.WrapperSimpleApp.run(WrapperSimpleApp.java:349)
	at java.base/java.lang.Thread.run(Thread.java:832)
Caused by: java.lang.reflect.InvocationTargetException: null
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:64)
	at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
	at java.base/java.lang.reflect.Method.invoke(Method.java:564)
	at io.onedev.commons.loader.Listener.notify(Listener.java:19)
	... 14 common frames omitted
Caused by: java.lang.RuntimeException: java.io.EOFException: Short read of block.
	at io.onedev.server.infomanager.DefaultCommitInfoManager.collect(DefaultCommitInfoManager.java:1077)
	at io.onedev.server.infomanager.DefaultCommitInfoManager.on(DefaultCommitInfoManager.java:1091)
	at io.onedev.server.persistence.SessionInterceptor$1.call(SessionInterceptor.java:23)
	at io.onedev.server.persistence.DefaultSessionManager.call(DefaultSessionManager.java:85)
	at io.onedev.server.persistence.SessionInterceptor.invoke(SessionInterceptor.java:18)
	... 19 common frames omitted
Caused by: java.io.EOFException: Short read of block.
	at org.eclipse.jgit.util.IO.readFully(IO.java:203)
	at org.eclipse.jgit.internal.storage.file.UnpackedObject.open(UnpackedObject.java:72)
	at org.eclipse.jgit.internal.storage.file.LooseObjects.getObjectLoader(LooseObjects.java:188)
	at org.eclipse.jgit.internal.storage.file.LooseObjects.open(LooseObjects.java:149)
	at org.eclipse.jgit.internal.storage.file.ObjectDirectory.openLooseObject(ObjectDirectory.java:396)
	at org.eclipse.jgit.internal.storage.file.ObjectDirectory.openLooseFromSelfOrAlternate(ObjectDirectory.java:373)
	at org.eclipse.jgit.internal.storage.file.ObjectDirectory.openObjectWithoutRestoring(ObjectDirectory.java:349)
	at org.eclipse.jgit.internal.storage.file.ObjectDirectory.openObject(ObjectDirectory.java:330)
	at org.eclipse.jgit.internal.storage.file.WindowCursor.open(WindowCursor.java:132)
	at org.eclipse.jgit.lib.ObjectReader.open(ObjectReader.java:212)
	at org.eclipse.jgit.revwalk.RevWalk.parseAny(RevWalk.java:1069)
	at io.onedev.server.infomanager.DefaultCommitInfoManager.collect(DefaultCommitInfoManager.java:1072)
	... 23 common frames omitted
<-- Wrapper Stopped

I know that in this case I can recover because I still have my own local version, but can anything be done to avoid this issue in the future? Like periodically keeping a backup of the last working version of each project, even as a default without an administrator explicitly activating any backup settings.

In an ideal world, the server should still start, but report an issue to administrators that one of its repositories is in a damaged state.