Kan,
Thank you in advance for your effort. I am providing system level design activities for a project. I have delegated schematic capture and layout. The schematic came back to me with some components I did not believe were necessary.

The designer was concerned that using an RFID interrogator would create power on the VDD pin of U16. I am familiar with the M24LR64E devices that can power external circuitry, but that device has both a separate Vout pin for the rectified RF and the datasheet explicitly states there is an internal circuit (regulator) that blocks the rectified RF generated signal from feeding the VDD pin. I have instructed the designer to be able to strap over the diode and I2C level shifter as can be seen in the above updated schematic.
Since the device can be interrogator powered for reading and writing the device (no need for power to be applied to VDD), if there was a reference circuit published for this device or explicit wording in the datasheet regarding the device behaviors, there would be little question as to how to properly treat VDD.
The question about filtering on VDD was a question from me regarding decoupling, RF bead, etc. that should be on VDD of the device.
Jon