A message flow controller limits a process from passing a new message in a reliable message passing layer from a source node to at least one destination node while a total number of in-flight messages for the process meets a first level limit. The message flow controller limits the new message from passing from the source node to a particular destination node from among a plurality of destination nodes while a total number of in-flight messages to the particular destination node meets a second level limit. Responsive to the total number of in-flight messages to the particular destination node not meeting the second level limit, the message flow controller only sends a new packet from among at least one packet for the new message to the particular destination node while a total number of in-flight packets for the new message is less than a third level limit.