Not sure if this is worthy of an issue, but I noticed something in the course of building some weekend-ware: https://estimatefee.com
It's currently 49m since the last block (453914) was found, and predictably there's an increase in the mempool. Right now bitcoin-cli estimatefee 2 (on 0.13.2) is returning 0.00123063
However, if we plot the mempool by fees (blue line is 0.00123063 fee rate). We can see there's actually 2MiB of transactions that are already paying more:
<img width="1197" alt="screen shot 2017-02-20 at 10 19 03 am" src="https://cloud.githubusercontent.com/assets/9326759/23133232/0ba49c82-f756-11e6-859f-227811762504.png">
I also verified by applying a topological sort to the transactions (what older versions of core, and bitcoin unlimited do) and there is also >2MiB of transactions exceeding that fee rate.
So even if there wasn't a single new transaction created, our transaction at the estimatefee feerate will not make it in the next 2 blocks.
This is probably a known issue/limitation, so feel free to close if it's not useful.