You can try dropping the replicas, wait for things to go green, then readd
them.
This has worked for a few people on IRC with similar issues.

On 18 December 2014 at 15:13, <phani.nadimi...@goktree.com> wrote:
>
> Hi All,
>
>    I upgraded elastic search from version 1.1.1 to 1.3.7.all things are
> working fine but when i checked status of my cluster it is showing "yellow"
> like following i waited for long time but shards not relocating.
>
>    {
>    "cluster_name": "elasticsearch",
>    "status": "yellow",
>    "timed_out": false,
>    "number_of_nodes": 2,
>    "number_of_data_nodes": 2,
>    "active_primary_shards": 78,
>    "active_shards": 78,
>    "relocating_shards": 0,
>    "initializing_shards": 0,
>    "unassigned_shards": 72
> }
>
> status of cluster.
>
>        i have 2 nodes node1 and node2 both nodes upgraded to 1.3.7 but
> when i check in es HQ plugin shard balancing is showing on node1 only it is
> not showing the same index status on node2.
>
>
>
>
>   But while starting server the nodes has been joined to gether and slave
> node (node 2) detected master as node1. why i am not getting node2 working
> here please help me out to change the yellow status to green.
>
>   Thanks & Regards,
>
> phani
>
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