"Well" building special function clarification
No, you do not draw an extra card.

The rules say the following under the Producer role:


  If a player has no empty production buildings, he produces no goods in this round.


Consequently it's established that the production of a good is dependent on the availability of a building to do so. If you only have one production building free then you can only produce at most one good, and so you do not qualify for the Well bonus.



In answer to the edited part of the question:

The correct interpretation of the rule is rule 1 - i.e. the goods must be new.

I think your misunderstanding is shown by the following statement "I'm currently producing two goods in total". This is not correct - you have produced one good already, and in the current phase you are producing one new good.

Note that to produce two goods in a single Producer phase you must either be the Producer, or have an Aquaduct built.