A bored tunnel is preferred because it is not as disruptive to build as a Cut & Cover tunnel.
The reason Ottawa's tunnel will be so deep is due to our geology. We have good rock to bore through, but it starts about 10-15 metres down. Because buildings are generally built on solid foundations, you will find that most newer buildings are built on piles which go right down to the bedrock level. If there is any doubt about the tunnel being too close to a foundation, then the tunnel should be 1 to 1.5 tunnel diameters under the foundation; in this case, the start of bedrock. Thus, for a 6 metre tunnel, it needs to be 6-9 metres under the start of the bedrock. The bottom of the tunnel will therefore be 15+9+6=30 metres down. This is not an unheard of depth. There are many subways which are at, or deeper than this. (Of course, if the power goes out, you are walking up the equivelent of 9 stories.)
In this diagram, the bedrock has been bored for the tunnel deep enough to be well under the foundation of the building.
The white station area has been mined out, as well as the beginning of the stairwell/elevator shafts. This will likely be done with road headers. I don't think that it would be economical to try to mine through the looser material above the bedrock, this part of the shafts will be dug from above (the fuchia area).
The reason digging shafts is less disruptive is just size. This does, however bring up the point that if the station accesses are to be far away from the stations, longer cuts will need to be made.
Incidently, the fact that buildings are built on piles is a good reason not to go under the north part of the Rideau Centre. Recall that there is an underground valley in that area, thus plies are quite long there.
Notice that the station/tunnel will cut many of the piles in this area. Significant underpinning will be required.