Being the road opener, the Botswanan was expected to cede time relative to his rivals, but bonuses helped him stay 2:30s clear of the field overall.
A throng of Monster Energy Honda riders follow, namely Cornejo, Ricky Brabec at 6:50s off the pace, and Pablo Quintanilla at 15:31s back.
Fifth overall is 2023 World Rally-Raid Champion Luciano Benavides of Husqvarna Factory Racing, with Red Bull GasGas rider Daniel Sanders sixth at 17:29s off top spot and the Australian’s team-mate, Sam Sunderland, another 1:11s in arrears.
Red Bull KTM’s Toby Price holds eighth position, up from 16th a day earlier, and has crept slightly closer to the top in terms of the split, at 19:21s behind Branch.
The 463km special between Al Henakiyah and Al Duwadimi started with around 30km in the dunes before becoming a quicker, predominantly dirt track route.
Benavides and Quintanilla set the early pace, with identical splits to Kilometre 41, before the latter took over top spot on stage.
Cornejo made it a three-way fight for the day’s honours and would not have even needed the help of the opener bonuses which he collected to take out the stage, by a 6:35s margin over Benavides and another 13 seconds to Quintanilla.
Price was on for a solid stage until he dropped almost five minutes relative to the aforementioned trio in the final 31km before the finish line and ended up seventh on the day.
It was a similar story for Sanders, who set the 13th-quickest time of the day, one position behind Branch, having run on the cusp of the top 10 for much of it.
Mason Klein’s hopes of Dakar 2024 glory appear to have finally been put paid to, after a reprieve when his Kove motorcycle finally arrived in time for the close of scrutineering after being held up in customs in Dubai.
The American, riding for his own KORR Offroad Racing Team, was third overall at the start of the day but lost almost two hours at Kilometre 46 and, while he got going again, is yet to make the finish as at time of writing.
Last year’s Dakar champion, Red Bull KTM’s Kevin Benavides, sits 12th overall in his return to racing following a broken fibula.
Stage 3, from Al Duwadimi to Al Salamiya, will be the longest of the rally so far in terms of the 733km total distance.
The 438km special includes a mixture of rocks, sand, and dunes.
General classification: Bikes Top 10
Pos | Num | Nat | Rider | Team | Time | Gap |
1 | 46 | BOT | ROSS BRANCH | HERO MOTOSPORTS TEAM RALLY | 09H 49′ 54” | |
2 | 11 | CHI | JOSE IGNACIO CORNEJO FLORIMO | MONSTER ENERGY HONDA TEAM | 09H 52′ 24” | + 00H 02′ 30” |
3 | 9 | USA | RICKY BRABEC | MONSTER ENERGY HONDA TEAM | 09H 56′ 44” | + 00H 06′ 50” |
4 | 7 | CHI | PABLO QUINTANILLA | MONSTER ENERGY HONDA TEAM | 10H 05′ 25” | + 00H 15′ 31” |
5 | 1 | ARG | LUCIANO BENAVIDES | HUSQVARNA FACTORY RACING | 10H 07′ 27” | + 00H 17′ 33” |
6 | 5 | AUS | DANIEL SANDERS | RED BULL GASGAS FACTORY RACING | 10H 07′ 29” | + 00H 17′ 35” |
7 | 4 | GBR | SAM SUNDERLAND | RED BULL GASGAS FACTORY RACING | 10H 08′ 24” | + 00H 18′ 30” |
8 | 2 | AUS | TOBY PRICE | RED BULL KTM FACTORY RACING | 10H 09′ 44” | + 00H 19′ 50” |
9 | 42 | FRA | ADRIEN VAN BEVEREN | MONSTER ENERGY HONDA TEAM | 10H 10′ 48” | + 00H 20′ 54” |
10 | 88 | ESP | JOAN BARREDA BORT | HERO MOTOSPORTS TEAM RALLY | 10H 11′ 01” | + 00H 21′ 07” |