can anybody explain the following to a git noob?

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A transcript...

git init
git add . > /dev/nul
git commit -m 'initial import'

git status
# On branch master
nothing to commit (working directory clean)

***** Create new branch  ********
git checkout -b my_branch
Switched to a new branch "my_branch"

*********Try to rename a directory  WTF?: Git thinks any directory with a
.git folder is empty and refuses to rename the directory.
git mv vendor vendor_new
fatal: source directory is empty, source=vendor/plugins/acts_as_audited,
destination=vendor_new/plugins/acts_as_audited

ls vendor/plugins/acts_as_audited/
CHANGELOG  generators  init.rb  lib  LICENSE  Rakefile  README  spec  tasks
test.txt

******** Initial state of the test directory
ls test
fixtures  functional  integration  mocks  test_helper.rb  unit  watir

****** Rename and commit changes
git mv test test_new
git commit -m 'renamed the test directory'

********Current state of the directory
 ls
app  Capfile  config  db  doc  lib  MyProject.kpf  public  Rakefile  README
script  test_new  tmp  vendor


********Checkout master. WTF?: Both the test and the test_new directories
exist. Why does the test_new exist in this branch?
git checkout master
ls
app  Capfile  config  db  doc  lib  MyProject.kpf  public  Rakefile  README
script  test  test_new  tmp  vendor

******** list  the test directory.  WTF?: Where did the mocks subdir go??
(see above for the initial directory listing)
 ls test
fixtures  functional  integration  test_helper.rb  unit  watir

**** Check the test_new directory:  WTF?: Where are all the other
subdirectories?
ls test_new
functional  mocks

******** Merge  Everything is merged properly.
git merge my_branch

ls
app  Capfile  config  db  doc  lib  MyProject.kpf  public  Rakefile  README
script  test_new  tmp  vendor
ls test_new
fixtures  functional  integration  mocks  test_helper.rb  unit  watir


obviously I am doing something profoundly wrong. Can somebody explain why
this is happening?
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