To try to answer your questions:
(1) I don't know what you mean by "acceptable." Many just intonation scales use various types of modifications to generate flats and sharps. Sometimes they use the same modification everywhere; sometimes not. Sometimes they use both, creating two different accidentals, such as a different tuning for C-sharp vs. D-flat in the same scale. There are a huge variety of possibilities in JI tunings, and what a particular listener considers "acceptable" depends on the person.
(2) I don't know what you mean by "in tune."
Here are the intervals in the Phrygian subset of your scale:
1 2 3 4 5 6 7
1/1 : 21/20 6/5 4/3 3/2 8/5 9/5 2/1
21/20: 8/7 80/63 10/7 32/21 12/7 40/21 2/1
6/5 : 10/9 5/4 4/3 3/2 5/3 7/4 2/1
4/3 : 9/8 6/5 27/20 3/2 63/40 9/5 2/1
3/2 : 16/15 6/5 4/3 7/5 8/5 16/9 2/1
8/5 : 9/8 5/4 21/16 3/2 5/3 15/8 2/1
9/5 : 10/9 7/6 4/3 40/27 5/3 16/9 2/1
2/1
The first column has the basic notes of the Phrygian mode, as applied to your scale. The other columns show ratios from each note up a specified number of steps within the Phrygian mode.
Here is the same data in cents:
1 2 3 4 5 6 7
0.0 : 84.5 315.6 498.0 702.0 813.7 1017.6 1200.0
84.5 : 231.2 413.6 617.5 729.2 933.1 1115.5 1200.0
315.6 : 182.4 386.3 498.0 702.0 884.4 968.8 1200.0
498.0 : 203.9 315.6 519.6 702.0 786.4 1017.6 1200.0
702.0 : 111.7 315.6 498.0 582.5 813.7 996.1 1200.0
813.7 : 203.9 386.3 470.8 702.0 884.4 1088.3 1200.0
1017.6: 182.4 266.9 498.0 680.4 884.4 996.1 1200.0
1200.0
Whether those intervals count as "in tune" or not depends on what you mean by that phrase. Some are significantly wider or narrower than equal temperament. Many fall into standard simple just intonation ratios; others are more complex and rare.
Here's a similar table for the Lydian subset of your scale:
1 2 3 4 5 6 7
1/1 : 9/8 5/4 7/5 3/2 5/3 15/8 2/1
9/8 : 10/9 56/45 4/3 40/27 5/3 16/9 2/1
5/4 : 28/25 6/5 4/3 3/2 8/5 9/5 2/1
7/5 : 15/14 25/21 75/56 10/7 45/28 25/14 2/1
3/2 : 10/9 5/4 4/3 3/2 5/3 28/15 2/1
5/3 : 9/8 6/5 27/20 3/2 42/25 9/5 2/1
15/8: 16/15 6/5 4/3 112/75 8/5 16/9 2/1
2/1
And here it is in cents:
1 2 3 4 5 6 7
0.0 : 203.9 386.3 582.5 702.0 884.4 1088.3 1200.0
203.9 : 182.4 378.6 498.0 680.4 884.4 996.1 1200.0
386.3 : 196.2 315.6 498.0 702.0 813.7 1017.6 1200.0
582.5 : 119.4 301.8 505.8 617.5 821.4 1003.8 1200.0
702.0 : 182.4 386.3 498.0 702.0 884.4 1080.6 1200.0
884.4 : 203.9 315.6 519.6 702.0 898.2 1017.6 1200.0
1088.3: 111.7 315.6 498.0 694.2 813.7 996.1 1200.0
1200.0
Again, some scalar intervals are much wider or narrower than equal temperament, but whether they are "in-tune" is subjective. Similarly, chords produced within this subset may vary from very "smooth" with small ratios to rather complex or odd-sounding (compared to ET and JI scales close to it).
(3) As noted in the other answer, F#-A-C-E would typically be called an F# half-diminished chord (jazz theorists might say minor seventh chord with flat five instead), but it could also be an A minor chord with added sixth, depending on harmonic context. The A-C-E portion creates a nice just minor triad, and the septimal F# will color the whole chord in an interesting way in this tuning.