Noticing the inconsistencies in shard's locations, wondering whether they're there or if they're bugged, I decided to take a monumental task of scouting every single coordinate as per mod's code upon myself.
And, I can tell that most of those that do not spawn even after reloading at the correct spot seem to appear either way above the ground or underground before promptly disappearing (I could see the glimpse of the beam right after the reload). Additionally, you can't see the ray or the object if you're a few map blocks away, which is somewhat concerning. If the mod author ever comes back, I hope these locations will be fixed. Although I did my best to search around, I might've missed them by chance or because of some mod conflict, I can't be sure.
My feedback about the spots: some of them are placed at main quest locations, you just can't miss 'em. Some are placed at significant places, at scenic spots, capitals/big cities or sometimes at covens. But most of them are at small towns/shrines/temples/dungeons/cemeteries, and I don't think you'll ever encounter them unless by pure chance while doing random quests, or fast travelling with Tedious Travel/Travel Options. I guess it's fine, as you're not meant to find them all, but a quest/locator pointing at the right spot would be a very welcome addition indeed. Initially I went to check the wiki for significant spots of interest, but it proved to be such a crapshoot I nearly gave up immediately.
****************Abibon-Gora
Bubuweyn, can't find it
The Citadel of Grorger, a little to the north
The Fortress of Dozon, on top of the tower
To the west of the Crimson Griffin Tower, ruins of Saerk Hall
****************Alcaire
Alcaire city, can't find it
Old Morgolda's farm, can't find it
Jhim Sei Shrine, can't find it
supposedly in the farm mentioned above again, can't find it
****************Alik'r Desert
East of The T'irman Cabin, pretty much in the middle of the desert with no landmarks, very random
Bleeding Light of Stendarr, to the east
Bubyrydata, can't find it
South of Joyous Omen of Stendarr in the middle of a desert
Anteliiga, palace grounds
The Rat and Scorpion Hostel
Berbaaqnia, can't find it
****************Anticlere
Buckingsley Vaults, can't find it
The tower of Moorhouse, inside the broken tower
The Mastersmith Plantation, NW from it
Between The Woodhouse Cemetery and Hearthing Grange, on the beach
Supposedly in Aldingborne Commons (cemetery?), can't find it
Near Howling Djinn Lodge
****************Antiphyllos
The Saurder Burial Ground, to the west
The Gold Ogre Pub
Near the same cemetery as above, can't find it
****************Ayasofya
In the north west part, on the beach overlooking Tigonus province
Cudgjireg in the cemetery
The Vlist Cemetery, can't find it
****************Bergama
Bleeding Light of Akatosh, can't find it
Kaluhbia or maybe in the lake nearby, or south of it - can't find it
****************Betony
On the hills near Whitefort, can't find it
At the south east corner of the smaller of the two lakes, the one near Hawkhouse Hall
****************Bhoraine
Ipsmoth
Old Vannabyth's Farm
Newtale, can't find it
Bhoraine city, can't find it
****************Cybiades
Ruins of Cosh Hall, north east end of the island, south of the ruins
Far west from the above ruins
****************Daenia
The Old Hawksley hovel, can't find it
The Old Masterhouse shack, can't find it
The Moorston Vaults
****************Daggerfall
Daggerfall City's palace
In the middle of the largest lake
North of Privateer's Hold, right on the square before the edge with Tulune region
Supposedly near/on the Wickhouse Farmstead, can't find it
Outside of Privateer's Hold
Near Fearful Ascension of Kynareth, can't find it
****************Dak'fron
The Old B'irchta Shack, can't find it
Ramji-Ij, can't find it
Ruins of Bairp Manor, NW of Mesoniara, can't find it
Zagoaria, can't find it
Old Rivga's Farm
Kykos Coven, north of Old Faelpga's Hovel, can't find it
****************Dragontail Mountains
Castle Lhurd, north of Old Kroshba's Hovel, can't find it
Should be visible from The Raarcom Lode, west of The Dancing Dagger Pub, can't find it
The Maildir Farmstead, can't find it
Scourge Barrow, south of Maaghtam Grange, can't find it
Tsetoaret, can't find it
Old Custsa's Farm, west of Isfascuara, can't find it
The Rherc Farmstead, can't find it
Corranoth's Tomb, the most north point of the region, far west of Joyous Altar Of Arkay
Wailing Star of Arkay, can't find it
****************Dwynnen
Ashfield Hall, on the beach
Grayville, can't find it
Ripham, can't find it
Ruins of Tower Moorhouse, SW of Stokwark, can't find it
Ruins of Moorwing Hall, East of The Beaver and Badger hostel, can't find it
Tower Moorham, West of the Restless Rascal tavern, can't find it
****************Ephesus
The Tower of Caarhter, east of Ephesus, can't find it
Ephesus city, can't find it
East of The grave of Morehon, south of D'uctem Palace, can't find it
Burning Seer of Mara, can't find it
****************Gavaudon
Ruins of Copperhouse Grange, East of Newfort in Wrothgarian Mountains, heard it just for a second after reload, can't find it
Gavaudon city, can't find it
Oxshire Hill, can't find it
****************Glenpoint
The Hearthston Cemetery, south of the Rat and Goblin tavern
Glenpoint city, can't find it
Whitebrone Hall
Arkmore, can't find it
****************Glenumbra Moors
The Hawking Cemetery, east of Kirkdale, a little bit to the east down the hill towards the lake
The Laughing Gnome Hostel
The Shrine of Mai, can't find it
****************Ilessan Hills
Old Elyzanna's Hovel, north of Infinite Altar of Arkay, can't find it
South of the biggest lake, west of Singhope
Ruins of Gaerhouse's Guard, west of Mastering Manor, can't find it
Charbrone, can't find it
****************Isle of Balfiera
Ruins of Masterlay Grange, south eastern little island from The Moorhouse Farmstead, south eastern direction
Near the top of the mountain on south western peninsula, main island
Direnni Tower, west of Singbury, can't find it (definitely spawns, but appears underneath the map)
The Hawksley Graveyard, east of Gaersmith Orchard
Somewhere near the Direnni Tower again? can't find it
****************Kairou
South of Inner Omen of Zenithar, in the middle of a desert pretty much
Syrissibia
Papiiton
F'ivir Hall
****************Kambria
The Gaerwing Crypts, can't find it
Kingford Court, can't find it
Near Eternal Soul of Zenithar, can't find it
****************Koegria
Ashhart Palace, can't find it
The Vojrilas Web, NW of Silent Prophet of Dibella, can't find it
Ashston Orchard, can't find it
****************Kozanset
The Dirty Dragon Hostel, can't find it
West of Baig Hall, can't find it
Sede-Korom, can't find it
****************Lainlyn
Holy Ascencion(sic) of Julianos
The Cujem Tombs (pretty cool and pretty position, props for that)
Blessed Tree of Julianos
Holy Altar of Julianos, can't find it
Mogahanu
****************Menevia
Fearful Altar of Dibella, can't find it
The Dynynak Excavation, South Western point on a mountain
West of Fearful Altar of Dibella, at the bottom of the hills, or on top? can't find it
Hawkton Court, can't find it
Chesterbrugh, can't find it (beautiful place though)
Lysandus' Tomb, south of Westcastle, can't find it
Most western point past The Dynynak Excavation, in the water on top of some dirt formation (very sweet place, can spot Balfiera Island from there)
****************Mournoth
The Prison of Rhurpur, on the island, far west of Surgam Hall
The Devil's Skull Lodge, can't find it
Zenopakat, can't find it
NW of Zenopakat, in the middle of nowhere? down the slope
****************Myrkwasa
Akhallaton
SW of Jode Shrine
West of Peraja
Locconis
****************Northmoor
The Moorston Cemetery, South of Riptown, can't find it
The Buckingwing Graveyard, can't find it
Tower Ashhart, east of Midleigh, can't find it
Wickhouse Hall
The Greencroft Farmstead, can't find it
****************Orsinium Area
NE of Reytry, can't find it
Orsinium, far north of Old Evelorya's Shack, can't find it
Ruins of Hawksmith's Hold, NW of Coppersmith Grange, can't find it
The Tombs of Kinging, SW of The Gaering Cabin, can't find it
****************Phrygias
Broadshire, can't find it
Ripmoth, can't find it
Andistair Laboratory, SW of Hearthing Court, can't find it
Blessed Martyr of Stendarr, can't find it
****************Pothago
Papumba-Hassi
Menakat
The Vault of Garoghyth, NW of Rhogunnu-Kom, near the beach
****************Santaki
Santaki city, can't find it
The Slifyler Cemetery, can't find it
Cyoghter Manor, can't find it
****************Satakalaam
The Tower of Ghorkke, on an island east of Javibia
Shelter of Phen, can't find it
Javibia
SE of The Tower of Ghorkke, back to back
****************Sentinel
C'oshon Tower, west from Akhenator
In front of Sentinel Palace
The Fortress of Fhojum, NE of Sentinel
Castle Faallem, west from the Selpar Farmstead, on the little island
NW of Boaven's Guard, south from Wailing Tree of Arkay
****************Shalgora
Perpertual Martyr of Arkay, can't find it
Baellech, can't find it
Daggerfall Coven, SW of Woodham Manor, can't find it
Castle Yeomsley, NW of Shelter of Phan, can't find it
****************Tigonus
Near The Silver Bird Pub, at the foot of the mountain
Makaka-Ij, can't find it
Kalureg
The Devil's Goblin Lodge
In the river separating Tigonus with Ayasofya region, west from The Crimson Djinn Hostel
****************Totambu
Castle Faortta, north of Gentle Martyr of Zenithar
Pinret, can't find it
The Old Shrornten Hovel, can't find it
Rleshan's Hold, north of Papibu
The Fox and Hedgehog Lodge, on the shore
The Hold of Fluldta, west of the Bleeding Heart of Zenithar, can't find it
****************Tulune
South of Mastering Court, can't find it
Crossidge, can't find it
The Citadel of Hearthham, on the east side of the island, can't find it
****************Urvaius
Ipslech
The Kingsly Vaults, NE of Copperhouse Grange, can't find it
Burgcroft, can't find it
****************Wayrest
Bleeding Ascension of Akatosh
The Old Woodhart Place
Wayrest city, NW corner of the palace garden
Fontshire, can't find it
Tunbrugh, can't find it
Woodborne Hall
****************Wrothgarian Mountains
Howling Stag Pub, can't find it
The Andastyr Mines, west of Old Vyctorya's Place, can't find it
Shedungent, can't find it
Divad Monument, can't find it
Bleeding Omen of Kynareth, can't find it
SW of Holy Sea/See? of Kynareth in the huge hole between the mountains?, can't find it
The Kingsly Graveyard near the biggest lake, east from it
Ruins of Gaersmith Court, east of the old coppersmith hovel, can't find it
Ruins of Gaerwing Manor, east of Reywark, can't find it
****************Ykalon
Masterson Manor, to the east
The Lysoria Council, east of the Blessed Tree of Mara, can't find it
Upbury
Gaerham Palace, can't find it
Castle Llugwych, south of Altar of I'ric