Sunset Route Two-Tracking Garnet-Indio, CA as of May 18, 2008:
With high telephoto blur, this shot east of the Amtrak depot taken from the Indian Ave. overpass in Palm Springs appears to show the westernmost CTC signals of a new control point (CP). That CP would be the eastern end of the present "South" siding at the timetable location called Garnet.

View is looking west from the Gene Autry Trail overpass. The Salvia siding (far right) WILL remain, while the new second main is on the far left. Present main is center track.

Salvia, looking east. New signals are in background.

From Date Palm Ave., looking west. Hardly a bridge for railfans!

Looking east.

From Ramon Road, looking west.

Looking east. The old cantilevered signal bridge seen in previous views has been removed.

A bridge is being constructed in Indio for the second main

A Cursory Analysis of the Future Colton, CA Flyer
View looks NORTH, or eastbound, at BNSF's Los Angeles-Chicago Transcon.

Looking SOUTH, or westbound, at the Transcon's actual crossing of the Sunset Route. New Orleans (east) is to the left, Los Angeles (west) to the right. Immediately ahead is the Interstate 10 overhead. Three blocks straight ahead is an underpass. So, for all practical purposes, the BNSF main cannot be raised or lowered.

The Sunset Route proper ... The Rancho Ave. overpass on the west. This is the western limit of the flyover. Double-stack train is on the West Colton Yard's "Bypass" track

Through this enlightening east looking trackside view the grade situation is made easy to visualize. From Rancho Ave. the shown Sunset Route grade is downward to where it levels off for crossing the BNSF Railway, and then heads downward again nearly a mile to the Mt. Vernon Ave. overpass.

View of the Mt. Vernon Ave. overpass. The flyover cannot go east beyond this point.

A west facing shot from the approach to the Mt. Vernon Ave. overpass. In the far background is the Rancho Ave. overpass. In the center is the old Southern Pacific passenger depot. Immediately left of it can be seen further back a BNSF Railway train crossing the "diamonds" in front of a waiting westbound Union Pacific train. In the foreground is where the old Pacific Electric freight switching yard was located decades ago. In reviewing Internet U. S. Geological Survey maps and data, the less than one and a quarter mile elevation increase from east (Mt. Vernon Ave., the camera location) to west (Rancho Ave., in the far background) appears to be around 45 feet, making for a present average 1% grade.

This view looks east from the Mt. Vernon overpass area. From right to left, the tracks continue to descend a couple of miles and then starts ascending through San Timoteo Canyon, the western slope of the famous Beaumont Hill

Analysis: The future flyover has severe and challenging geographic design limitations placed upon it.
The key and severest gradient span will be between Mt. Vernon Ave. (in the east) and the BNSF Railway line (about 3/8's of a mile from Rancho Ave. in the west)
While the necessary track elevation increase is not insurmountable in itself, it will be interesting to see what design engineers come up with.
A Close-By Case Example
West of Colton, CA is the six mile long West Colton Yard classification facility. At the east end of that yard a line shoots north to northern California and Oregon, the first 78 miles of which is known as the Palmdale Cutoff. Northward on that Palmdale Cutoff, right out of West Colton Yard, is the Slover siding. The north end of Slover and the line immediately past it conveniently provides our case study example ...
The north end of Slover siding. After the Mill Street overpass (from which this picture was captured) in San Bernardino, the track rises steeply ...

... and goes over Rialto Ave. and the former route of the famous Santa Fe "Super Chief," which route is now owned my Metrolink, the commuter agency in the Los Angeles area.

The bridge viewed from the northeast

On the north side of the railroad bridge, the north-south track slopes steeply.
(For rail history buffs, left of the telephone poles but right of the trees is the alignment of the famous Pacific Electric trolley line that ran between Los Angeles and San Bernardino many, many years ago. The line was in a deep cut to get underneath the then Santa Fe main behind the camera)

This view looking southward shows how steeply the line then descends. The angled ex-Santa Fe line is in the left background

The line descends severely in order to go underneath Foothill Blvd., the famous "Route 66," where the below photograph was taken. Comparing the rail line to the rather level land on each side of the track cut puts the downward slope's steepness into perspective

Conclusion: The Colton Flyover is definitely possible, but will, by necessity, differ from traditional design gradients, if but for only a short distance