[zionius]

Congratulations, amazing work! So many mysteries are finally solved.
I have a few tiny questions about the transcription part:

The time format is inconsistent, sometimes converted to American style (eg. 3:30) and sometimes not. The MS always used UK style (3.30).
What's the meaning of the multiple asterisks in S3?
p76 what's the meaning of the three left quotation marks?
p82 "17 21". It seems "17" should be crossed out.

Also, I find images of 5 pages of MSS 4/2/18 (pages 3,6,8,9,10), and compared them with your reading:
p44 On the bottom of "17 Tu." cell something was deleted, is it possible to decipher that? Is the deleted word on "18" cell really "LQ"? The MS doesn't look like so to me. (Of course the image I have is very blur so I could probably be wrong) Also, I think Tolkien later rejected moving the boxed cell on Jan 18 to Jan 17, by adding bars on the arrow. So it fixes the inconsistency discussed in footnote 53. (RC 360 also says this event is Jan 18)
p54 Is it possible to decipher the deleted words after "At 8 a.m."?
p64 Missing the full stop at the end of "They camp 20 miles or so on way".
p64 "about 35 m. p. day.[89]" p65 "89. 36 miles per day: see note 99.". It should be both "35".
p66 "and camps 30 miles on way." seems to be "and camps 30 miles east on way." in the MS, which is also the reading in RC 542.
p74 The "F. 16" cell has a deleted "LQ" unmentioned in transcription. Is that connected with the rejected LQ on p44?
p117 "with the moonrise and set times adjusted by 30 minutes". As James the Just said in this thread, I think the adjustment is 37 minutes, or approximately 40m/0.5h. But it can't be approximated to 30m.

Update: I compared the reading in Chronology (C) with the quotes in The Lord of the Rings: A Reader's Companion (3rd ed., RC), and note several tiny differences. Without (or even with) the images it's hard to say which one is correct. Here are them (I have ignored editorial differences such as battlefield/battle field):
RC194: "Glorfindel set out from Rivendell on 9 October." C36 says it's Oct 10, according to footnote 32 Tolkien mistakenly marked it as Oct 9 and then corrected.
RC348: "They pass Gate of Argonath and come to Lake Hithoel (1.30 pm)". C52: "They pass Gate of Argonath and come to Lake Nen Hithoel (1:30 p.m)".
RC360: "Sarn Gebir". C46: "Sarngebir".
RC361: February 23 "The Orcs dismayed, but Grishnákh crosses Anduin and daringly pushes down west shore in pursuit. He believes Coy. is making for Minas Tirith." C53 says this entry was moved to February 24.
RC379: "then need long rest...they can trot ?from 6 mph for about 50 ?miles." C57: "then need a long rest...they can run [?for] 6 mph for about 50 miles."
RC410: "Wormtongue flies to Isengard". C60: "Wormtongue flees to Isengard."
RC455: "Slagmounds". C62: "Slag-mound".
RC484: "see last glimpse of sun". C66: "see last gleam of sun".
RC507: "March 5: 11.30 leaves Dolbaran". C138: "March 5 11.20 leaves Dolbaran"
RC508: "ride 69 miles". C138: "ride 68 miles".
RC508: "Pippin sees moon-rise at 9 pm and". C138: "Pippin sees moon-rise at 9 pm [illeg]".
RC508: ", 176 miles from Edoras". C138 says this sentence is rejected.
RC531: "According to Scheme, on 6 March they left Helm's Deep at about 4.00 p.m.,". C64 says it's "1 pm".
RC538: "slowly by hidden path in lower mountains." C64: "steadily by hidden paths in the mountains,".
RC542: "30 miles east on way". C66 "30 miles on way".
RC587: " reaching Calembel on Ciril.". C66: ". Reaches Calembel on Ciril.".
RC620: "Ring destroyed". C78: "Ring is destroyed".
RC639: "July [10>] 18: Éomer returns from Rohan with picked body of Riders.". C82: "July [10>18>] 17 Éomer returns from Rohan with picked body of Riders.", and footnote 130 says the change 18>17 conflicts the text and Appendix B.
RC653: "Scheme notes that the distance from Weathertop to Bree is ninety-five miles." I can't find this info in C.