Getting ssh-agent to work with git run from windows command shell

I had the same problem as you, then I tried adding this code

#! /bin/bash eval `ssh-agent -s` ssh-add ~/.ssh/*_rsa

into file .bashrc in my home directory. And it works!

For msysgit you might have to modify a bit the solution offered by https://help.github.com/articles/working-with-ssh-key-passphrases

declare -x SSH_ENV="$HOME/.ssh/environment"# start the ssh-agentfunction start_agent {    echo "Initializing new SSH agent..."    # spawn ssh-agent    ssh-agent | sed 's/^echo/#echo/' > "$SSH_ENV"    echo succeeded    chmod 600 "$SSH_ENV"    . "$SSH_ENV" > /dev/null    ssh-add}# test for identitiesfunction test_identities {    # test whether standard identities have been added to the agent already    ssh-add -l | grep "The agent has no identities" > /dev/null    if [ $? -eq 0 ]; then        ssh-add        # $SSH_AUTH_SOCK broken so we start a new proper agent        if [ $? -eq 2 ];then            start_agent        fi    fi}# check for running ssh-agent with proper $SSH_AGENT_PIDif [ -n "$SSH_AGENT_PID" ]; then    ps -f -u $USERNAME | grep "$SSH_AGENT_PID" | grep ssh-agent > /dev/null    if [ $? -eq 0 ]; then  test_identities    fielse    if [ -f "$SSH_ENV" ]; then    . "$SSH_ENV" > /dev/null    fi    ps -f -u $USERNAME | grep "$SSH_AGENT_PID" | grep ssh-agent > /dev/null    if [ $? -eq 0 ]; then        test_identities    else        start_agent    fifi

As you may notice the only change I did was in the ps call, since msysgit don't use -U but -u

Even though you've probably solved it... use the eval command to make the ssh_agent process stick:

eval `ssh-agent.exe`

Then use ssh-add to add the keys you need.