Where did the ecclesiastical offices go? In the Bible, there are three distinct titles:


Episcopai &mdash; literally administrator, these were tasked with overseeing a church/region
Presbyteros &mdash; a lesser title, still tasked with overseeing a church.
Diaconos  &mdash; Deacons (like Stephen)


In the Catholic and Orthodox Churches (and possibly the Anglicans?), these "translate" to bishop, priest, and deacon respectively (the quotes are because the English words are the product of linguistic shifts, and not an actual separate etymology), and we go off on a tangent about ecclesiastical lines and succession, yada yada yada...

According to the mainstream Protestant line of thought, what happened to these positions? They do not seem apparent in the Baptist, Congregationalist, Presbyterian, or Reformed church governments (I do not know the Lutheran church government).



As a side note: while presbyteros is the etymological ancestor of priest, the word has a fundamentally different meaning. Catholic "priests" are better understood as "presbyters" which is very different from the "priesthood of all believers" (the Latin for a "priest" as in a parish priest is "presbyteros", the Latin for "priest" as in "priesthood of all believers" is "sacerdos"). This is a deficiency of English itself as most others have the difference built in.
The answer here will vary widely depending on which specific protestant group you ask. No one can speak to every protestant tradition.  

Try to think of a continuum, with one end describing groups with a very formalized and liturgical worship style, and the other end an informal and more laid-back style. Groups using the former style tend to (may not always) place more importance on structure and leadership at the level of the entire denomination (If you're liturgical, someone fairly high up was likely privileged to write out your liturgy). Groups using the latter style tend to (but not always) place more importance on the structure and leadership at the congregational level. In this answer, I will try here to speak to the latter end of the continuum.

In many such protestant denominations, every member is a priest/presbytor. In 1 Peter 2:9, speaking to all believers:


  you are a chosen people, a royal priesthood


Some will take this as far as calling any distinctions &mdash; at all &mdash; between "lay" and "clergy" backwards and evil, because the distinction discourages the individual Christian from taking up the full responsibility for their relationship with Christ. I know of groups that don't even formally ordain their pulpit ministers.

Moving on to Episcopai. This office may be called variously Elder, Bishop, Pastor, Minister, or Reverend; never Father, as that is a title reserved for God alone &mdash; some will even refuse to use the title "Father" when directly addressing a Catholic priest, as they see it akin to blasphemy. This level is notable because office holders generally (not always, especially among groups that use "Elders") draw some kind of salary to help support themselves directly through their ministerial work. This office is generally charged with oversight of a region or congregation, and the selection for this position may even originate within the congregation itself.

The final office is Deacon. Deacons may be in charge of a service area within a particular congregation, such as "benevolence", "building/grounds/custodial", "children's ministry", etc. Deacons will typically not draw a salary from their ministerial work, but are nearly always chosen from the so-called "lay" membership of the congregation itself.